Smyd5 (SMYD family member 5) - Rat Genome Database

Name: Smyd5
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Smyd5 (SMYD family member 5) Rattus norvegicus

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Symbol:

Smyd5

Name:

SMYD family member 5

RGD ID:

1309153

Description:

Predicted to enable histone H4K20 methyltransferase activity. Predicted to be involved in regulation of stem cell differentiation; regulation of stem cell division; and retrotransposon silencing by heterochromatin formation. Orthologous to human SMYD5 (SMYD family member 5); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

histone-lysine N-trimethyltransferase SMYD5; LOC312503; SET and MYND domain containing 5; SET and MYND domain-containing protein 5

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	SMYD5 (SMYD family member 5)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Smyd5 (SET and MYND domain containing 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Smyd5 (SMYD family member 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SMYD5 (SMYD family member 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SMYD5 (SMYD family member 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Smyd5 (SMYD family member 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SMYD5 (SMYD family member 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SMYD5 (SMYD family member 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Smyd5 (SMYD family member 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	SMYD5 (SMYD family member 5)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Smyd5 (SET and MYND domain containing 5)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	smyd5 (SMYD family member 5)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Smyd5	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	SET5	Alliance	DIOPT (InParanoid\|OrthoFinder)
Xenopus tropicalis (tropical clawed frog):	smyd5	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|PANTHER\|PhylomeDB)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	119,527,115 - 119,541,580 (+)	NCBI		GRCr8
mRatBN7.2	4	117,969,615 - 117,984,082 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	117,969,626 - 117,984,347 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	4	123,450,999 - 123,465,446 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	119,226,113 - 119,240,550 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	117,839,478 - 117,853,906 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	117,215,064 - 117,229,873 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	117,215,064 - 117,229,873 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	4	181,792,679 - 181,807,488 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	119,686,587 - 119,701,588 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	4	119,931,087 - 119,945,151 (+)	NCBI
Celera	4	106,951,724 - 106,966,117 (+)	NCBI		Celera
Cytogenetic Map	4	q34	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Alstrom syndrome (ISO)

congenital disorder of glycosylation type IIb (ISO)

dystonia (ISO)

Methylmalonyl-CoA Epimerase Deficiency (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

(1->4)-beta-D-glucan (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

2,2',4,4'-Tetrabromodiphenyl ether (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

2,3,7,8-Tetrachlorodibenzofuran (EXP)

2,4-dinitrotoluene (EXP)

2,6-dinitrotoluene (EXP)

3,4-methylenedioxymethamphetamine (ISO)

4,4'-sulfonyldiphenol (EXP)

4-amino-2,6-dinitrotoluene (EXP)

aconitine (EXP)

acrylamide (ISO)

amphetamine (EXP)

arsane (ISO)

arsenic atom (ISO)

arsenite(3-) (ISO)

atrazine (ISO)

bisphenol A (EXP)

bisphenol F (EXP,ISO)

cadmium atom (ISO)

cadmium dichloride (ISO)

carbon nanotube (ISO)

CGP 52608 (ISO)

chlorpyrifos (ISO)

cobalt dichloride (EXP)

copper(II) sulfate (ISO)

cyclosporin A (ISO)

dioxygen (ISO)

endosulfan (EXP)

enzyme inhibitor (ISO)

flutamide (EXP)

indole-3-methanol (EXP)

lead diacetate (EXP)

paracetamol (EXP,ISO)

paraquat (EXP)

pentachlorophenol (ISO)

perfluorooctane-1-sulfonic acid (ISO)

perfluorooctanoic acid (EXP)

phenobarbital (EXP)

pirinixic acid (ISO)

resveratrol (ISO)

tetrachloromethane (EXP)

thioacetamide (EXP)

titanium dioxide (ISO)

trichostatin A (ISO)

trimellitic anhydride (ISO)

urethane (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

methylation (IEA)

negative regulation of gene expression, epigenetic (IBA,ISO)

positive regulation of cytoplasmic translational elongation (IEA,ISO)

regulation of stem cell differentiation (ISO)

regulation of stem cell division (ISO)

transposable element silencing by heterochromatin formation (ISO)

Cellular Component

cytoplasm (IEA,ISO)

Molecular Function

histone H3K36 trimethyltransferase activity (IEA,ISO)

histone H4K20 methyltransferase activity (IBA,ISO)

protein binding (ISO)

protein-lysine N-methyltransferase activity (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	GOA pipeline	RGD automated data pipeline
3.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data

Smyd5
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	119,527,115 - 119,541,580 (+)	NCBI		GRCr8
mRatBN7.2	4	117,969,615 - 117,984,082 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	117,969,626 - 117,984,347 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	4	123,450,999 - 123,465,446 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	119,226,113 - 119,240,550 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	117,839,478 - 117,853,906 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	117,215,064 - 117,229,873 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	117,215,064 - 117,229,873 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	4	181,792,679 - 181,807,488 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	119,686,587 - 119,701,588 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	4	119,931,087 - 119,945,151 (+)	NCBI
Celera	4	106,951,724 - 106,966,117 (+)	NCBI		Celera
Cytogenetic Map	4	q34	NCBI

SMYD5
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	73,214,245 - 73,227,221 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	2	73,214,222 - 73,227,221 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	2	73,441,373 - 73,454,349 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	73,294,874 - 73,307,863 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	2	73,353,044 - 73,366,010	NCBI
Celera	2	73,292,193 - 73,305,182 (+)	NCBI		Celera
Cytogenetic Map	2	p13.2	NCBI
HuRef	2	73,177,028 - 73,190,017 (+)	NCBI		HuRef
CHM1_1	2	73,372,172 - 73,385,162 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	2	73,227,234 - 73,240,210 (+)	NCBI		T2T-CHM13v2.0

Smyd5
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	6	85,408,958 - 85,423,411 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	6	85,408,971 - 85,423,417 (+)	Ensembl		GRCm39 Ensembl
GRCm38	6	85,431,976 - 85,446,429 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	6	85,431,989 - 85,446,435 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	6	85,381,970 - 85,396,423 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	6	85,397,647 - 85,411,441 (+)	NCBI		MGSCv36	mm8
Celera	6	87,403,922 - 87,418,368 (+)	NCBI		Celera
Cytogenetic Map	6	C3	NCBI
cM Map	6	37.44	NCBI

Smyd5
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955424	12,408,059 - 12,423,164 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955424	12,408,059 - 12,422,424 (-)	NCBI	ChiLan1.0	ChiLan1.0

SMYD5
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	12	53,153,509 - 53,166,512 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	2A	53,156,264 - 53,169,262 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	2A	73,267,007 - 73,280,006 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	2A	74,755,794 - 74,768,776 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2A	74,755,794 - 74,768,776 (+)	Ensembl	panpan1.1		panPan2

SMYD5
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	17	49,638,436 - 49,650,231 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	17	49,639,765 - 49,650,182 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	17	49,285,049 - 49,296,844 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	17	50,504,369 - 50,516,165 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	17	50,504,370 - 50,516,117 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	17	49,520,653 - 49,532,448 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	17	49,587,525 - 49,599,320 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	17	50,146,500 - 50,158,285 (-)	NCBI		UU_Cfam_GSD_1.0

Smyd5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024406292	11,559,385 - 11,573,364 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936491	16,997,962 - 17,011,551 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936491	16,997,962 - 17,011,470 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SMYD5
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	3	69,552,738 - 69,565,978 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	69,552,731 - 69,566,013 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	72,756,041 - 72,769,307 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SMYD5
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	14	33,946,154 - 33,959,571 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	14	33,946,108 - 33,959,285 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666045	78,123,381 - 78,136,576 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Smyd5
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624762	416,229 - 429,741 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624762	416,229 - 429,763 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Smyd5
34 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	314
Count of miRNA genes:	170
Interacting mature miRNAs:	196
Transcripts:	ENSRNOT00000020909
Prediction methods:	Microtar, Miranda, Rnahybrid, Targetscan
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
2302051	Pia28	Pristane induced arthritis QTL 28	5.3	0.001	blood autoantibody amount (VT:0003725)	serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)	4	73630210	118630210	Rat
631689	Scl4	Serum cholesterol level QTL 4	1.9	0.008	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	4	95174120	140174120	Rat
1582232	Gluco25	Glucose level QTL 25	3.6	0.0023	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	85253748	148090731	Rat
2302049	Pia32	Pristane induced arthritis QTL 32	5.1	0.001	blood autoantibody amount (VT:0003725)	serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)	4	105789505	150789505	Rat
1358352	Srcrt3	Stress Responsive Cort QTL 3	2.29		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	4	38465774	146803430	Rat
1578655	Bmd11	Bone mineral density QTL 11	11		femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	4	90850165	135850165	Rat
1300116	Hrtrt5	Heart rate QTL 5	3.76		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	4	116179486	151161268	Rat
6478763	Anxrr46	Anxiety related response QTL 46		0.07428	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	4	110870972	155870972	Rat
10755501	Bp390	Blood pressure QTL 390	2.5		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	4	26775591	168368347	Rat
6478760	Anxrr45	Anxiety related response QTL 45		0.06717	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	4	110870972	155870972	Rat
738009	Sach4	Saccharine consumption QTL 4	4.9	0.000016	consumption behavior trait (VT:0002069)	saccharin intake volume to total fluid intake volume ratio (CMO:0001601)	4	59948935	154902892	Rat
61330	Eau1	Experimental allergic uveoretinitis QTL 1		0.0003	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	4	70362013	132642728	Rat
738015	Pia9	Pristane induced arthritis QTL 9	4.5	0.048	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	80694870	125694870	Rat
2312567	Glom19	Glomerulus QTL 19	1.9	0.006	kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	4	45456990	146803430	Rat
7207480	Bss105	Bone structure and strength QTL 105	8.1		femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	4	109827074	154827074	Rat
731165	Uae21	Urinary albumin excretion QTL 21	2.4	0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	4	106649412	151649412	Rat
737821	Hcar9	Hepatocarcinoma resistance QTL 9	3.7		liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	4	109866907	167139601	Rat
634335	Anxrr16	Anxiety related response QTL 16	7.22		locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	4	93308457	167139447	Rat
631646	Stl4	Serum triglyceride level QTL 4	6.5	0.0001	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	4	73169846	132642728	Rat
634334	Xhs3	X-ray hypersensitivity QTL 3	10		intestine integrity trait (VT:0010554)	post-insult time to onset of moribundity (CMO:0001896)	4	84728680	129854654	Rat
61406	Scwia1	Streptococcal cell wall induced arthritis QTL 1	2.3		joint integrity trait (VT:0010548)	experimental arthritis severity measurement (CMO:0001459)	4	106805662	151805662	Rat
1549832	Bss3	Bone structure and strength QTL 3	11		femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	4	109827074	154827074	Rat
70177	Xhs1	X-ray hypersensitivity QTL 1	25.1		intestine integrity trait (VT:0010554)	post-insult time to onset of moribundity (CMO:0001896)	4	82798864	152731274	Rat
1354612	Foco1	Food consumption QTL 1	8.87		eating behavior trait (VT:0001431)	food intake rate (CMO:0000427)	4	44463908	148090542	Rat
724522	Bp146	Blood pressure QTL 146	2.2	0.0021	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	4	73630210	118630210	Rat
2303168	Bp330	Blood pressure QTL 330	4.25	0.017	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	4	5214602	146446691	Rat
61476	Aia3	Adjuvant induced arthritis QTL 3	3.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	86730991	131730991	Rat
738031	Alc14	Alcohol consumption QTL 14	7.6	0.00003	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	4	59948935	154902892	Rat
1576316	Ept5	Estrogen-induced pituitary tumorigenesis QTL 5	3.8		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	4	83428419	177635233	Rat
1641919	Alc22	Alcohol consumption QTL 22		0.0005	drinking behavior trait (VT:0001422)	ethanol drink intake rate (CMO:0001407)	4	81192555	126192555	Rat
631662	Hcar2	Hepatocarcinoma resistance QTL 2	3.1	0.0003	liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	4	78878504	123878504	Rat
1576305	Emca6	Estrogen-induced mammary cancer QTL 6	5.8		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	4	44463720	155883716	Rat
61418	Pia5	Pristane induced arthritis QTL 5	4.5		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	62277855	128289560	Rat
738016	Alc16	Alcohol consumption QTL 16	3.6	0.00015	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	4	59948935	154902892	Rat
1358202	Gluco11	Glucose level QTL 11	2.4	0.02	adipocyte glucose uptake trait (VT:0004185)	absolute change in adipocyte glucose uptake (CMO:0000873)	4	85379421	167139601	Rat
1641833	Alc21	Alcohol consumption QTL 21	8.6	0.0001	drinking behavior trait (VT:0001422)	ethanol drink intake rate (CMO:0001407)	4	56698790	126192555	Rat
1354660	Salc1	Saline consumption QTL 1	11.26		drinking behavior trait (VT:0001422)	saline drink intake rate (CMO:0001627)	4	44463908	148090542	Rat
2306899	Bp338	Blood pressure QTL 338		0.071	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	4	81006124	120102625	Rat
1298082	Stresp4	Stress response QTL 4			blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	4	50119848	146803430	Rat
631674	Iddm14	Insulin dependent diabetes mellitus QTL 14			blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	4	64528739	157573521	Rat
12798519	Anxrr54	Anxiety related response QTL 54	2.54	0.05	locomotor behavior trait (VT:0001392)	distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)	4	114627026	159627026	Rat
1578670	Bss14	Bone structure and strength QTL 14	16.4		femur morphology trait (VT:0000559)	bone trabecular cross-sectional area (CMO:0002311)	4	87327165	132327165	Rat
12798523	Anxrr56	Anxiety related response QTL 56	2.83	0.05	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	4	85253748	150276390	Rat
70200	Alc18	Alcohol consumption QTL 18	9.2		drinking behavior trait (VT:0001422)	ethanol intake volume to total fluid intake volume ratio (CMO:0001591)	4	56647873	149491524	Rat
61434	Cia3	Collagen induced arthritis QTL 3	4.8		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	103194656	148194656	Rat
1331759	Hrtrt13	Heart rate QTL 13	3.54628		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	4	110275411	168266883	Rat
2316958	Gluco58	Glucose level QTL 58	10		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	11320076	180699135	Rat
1578662	Bss15	Bone structure and strength QTL 15	19.6		femur width (VT:1000666)	femoral neck width (CMO:0001695)	4	87327165	132327165	Rat

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	nervous system	renal system	reproductive system	respiratory system
9	11	49	113	91	90	59	25	59	6	218	97	93	45	60	31

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001107870	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473957	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000004	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000020909 ⟹ ENSRNOP00000020909

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	4	117,969,630 - 117,984,338 (+)	Ensembl
Rnor_6.0 Ensembl	4	117,215,064 - 117,229,873 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000100526 ⟹ ENSRNOP00000085767

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	4	117,969,626 - 117,984,347 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000115574 ⟹ ENSRNOP00000077078

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	4	117,974,779 - 117,984,338 (+)	Ensembl

RefSeq Acc Id:

NM_001107870 ⟹ NP_001101340

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	119,527,115 - 119,541,580 (+)	NCBI
mRatBN7.2	4	117,969,615 - 117,984,082 (+)	NCBI
Rnor_6.0	4	117,215,064 - 117,229,873 (+)	NCBI
Rnor_5.0	4	181,792,679 - 181,807,488 (+)	NCBI
RGSC_v3.4	4	119,686,587 - 119,701,588 (+)	RGD
Celera	4	106,951,724 - 106,966,117 (+)	RGD

Sequence:

show sequence

AAGGCGGAGGCGTGCCCAAGATGGCGGCCTCCATGTGCGACGTGTTCTCCTTCTGCGTGGGCGT
GGCAGGCGGTGCCCGGGGCTCCGTGGAAGTCCGTTTTGTGAGCAGCGCCAAGGGAAAGGGACTG
TTTGCCACACAGCTGATTCGGAAGGGAGAGACCATCTTCATCGAAAGACCGCTAGTAGCTTCAC
AGTTTCTCTGGAATGCACTTTATCGGTACCGGGCCTGTGACCACTGTCTTCGGGCACTGGAGAA
GGCAGAGGAGAATGCCCAGAGGCTGACTGGGAAACCAGGCCAGGTTCTACCACACCCAGAGCTA
TGCAGTGTGCGCAAGGACCTCCACCAGAACTGCCCCCGCTGCCAGGTGACGTACTGCAGTGCAG
AGTGTCGGCTGGCAGCTGCAGAGCAGTACCACCAGATCCTGTGCCCAGGCCCATCCCAGGATGA
CCCCCGGCACCCCCTCAATAAGCTGCAGGAGGCATGGAGGAGTGTTCACTATCCTCCTGAGACT
GCGAGTATAATGCTGATGGCCCGGATGGTAGCCACAGTGAAGCAGGCCAAGGACAAGGACCACT
GGGTCAGGCTCTTCTCCCATTTCTGCAGCAAGACAGCCAATGAGGAGGAGGAAATTGTCCACAA
ACTCCTGGGGGACAAATTCAAGGGCCAGCTGGAACTTCTGCGTAGGCTCTTCACAGAGGCCCTT
TATGAGGAGACCCTCAGTCAGTGGTTCACACCAGATGGATTCCGGTCTCTCTTTGCCCTTGTTG
GGACCAACGGTCAAGGGATTGGAACCAGTTCCCTCAGTCAGTGGGTACATGCCTGTGATGCACT
GGAGCTGAAGCCTCAGGAACGGGAACAGCTAGACACCTTCATTGACCAGTTGTACAAGGACATC
GAGGCAGCAACCGGAGAGTTCCTTAACTGTGAGGGATCCGGCCTCTTCGTGCTTCAAAGCTGCT
GCAACCACAGCTGTGTCCCCAATGCGGAGACCTCCTTCCCAGAAAACAACTTCCTTTTACACGT
CACTGCCCTGGAGGATATTGAGCCAGGCGAGGAAATCTGTATCAGCTACTTAGACTGCTGTCAG
CGGGAGCGCAGCCGCCATAGCCGCCACAAGATCCTCAGGGAGAACTACTTGTTCGTCTGTTCCT
GTCCCAAATGCCTGGCAGAGGCTGATGACCCTAACGTGACCTCAGAAGAGGAGGAAGAGGAAGA
TGAGGAGGAAGGAGAGCCAGAAGATGCAGAACTAGGGGATGAGATGACTGATGTCTGACGTCAC
CTTGCCTGGAAGGGGCCCTGCCCAGACCCTGCTGGAAAGGGGGCCTGTCCTCCACAAATGTGGA
TGGAAGGACCATCCCCTCCCCCTTGCACCCACTGCCTGCTTTCTCCCTTCTAGCATTCTGCTGG
AGGGTAGGATAAAGGCTGGACCTGAGCCCCCTCACCAGACCTCATGCCCTGAGCACTGCTGCTG
AGCTGCATCGGCCCTGTGCCATCACCAAGCCTTCCAGAACTGGCCTCCCCTGCCATGCTCCAGT
GTAGCTGTGAGACTGAATCAAGTCTCAGGCCTCATAGTGTTCTTCCTCTGGGCCCCTCAGCCCA
TACTCAACTCATGCATCCACCAGAGGCTTGGCGCCTGTTGACAGGCTATTAATTTGAGGGTGGC
AACAAAATGGCCAATCTTGAGAGCAGATTGGTTTCCTTGCCAGAAAGAGGTGATATGAAGCCTT
ACCTCTCTCTTCCTTACTGCTCACTTACCACAGCTGCTGCTGAAGTAATGGCCCGCCACTTGCC
AGCAACAGGCAGGAACAAGGGAGTAGGCCTTAGAACAACACTGCAAAAGACTCTGCCAGGGGCG
CTGGGCTGTTCCCACTGGACAGTGGGGAGGTGGAGATTAACCTGTTGGCCAAACTCCAGAATTG
CTATGCCTGTGTTCTGCCTCTGAGGCTCAGGCAAGGGGCTAGCTCCATAATGTGTGGACGATGC
CTGTCTTTATCAGGACAGAGACCACCATCCTTTCTCAGACTAACAATATGGCAGATGACAGACT
GCTCCATAATTTAGGATACCCAGTCTTGCCTGAGACCAGCTGCAGTGGTCCAGCAAGGGTCCTT
TACAATCTCCAAAGAGGAGCACCAGTCTTCCAGAAACCTGACAGGCTGGGCAGGACACTTGAAG
AGGAGCCAGGGCTTTG

hide sequence

Protein Sequences


Protein RefSeqs	NP_001101340	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL91185	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000020909.5
	ENSRNOP00000077078.1
	ENSRNOP00000085767.1

RefSeq Acc Id:

NP_001101340 ⟸ NM_001107870

- UniProtKB:

D3ZII8 (UniProtKB/TrEMBL), A6IAR7 (UniProtKB/TrEMBL), A0A8I6A432 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MAASMCDVFSFCVGVAGGARGSVEVRFVSSAKGKGLFATQLIRKGETIFIERPLVASQFLWNAL
YRYRACDHCLRALEKAEENAQRLTGKPGQVLPHPELCSVRKDLHQNCPRCQVTYCSAECRLAAA
EQYHQILCPGPSQDDPRHPLNKLQEAWRSVHYPPETASIMLMARMVATVKQAKDKDHWVRLFSH
FCSKTANEEEEIVHKLLGDKFKGQLELLRRLFTEALYEETLSQWFTPDGFRSLFALVGTNGQGI
GTSSLSQWVHACDALELKPQEREQLDTFIDQLYKDIEAATGEFLNCEGSGLFVLQSCCNHSCVP
NAETSFPENNFLLHVTALEDIEPGEEICISYLDCCQRERSRHSRHKILRENYLFVCSCPKCLAE
ADDPNVTSEEEEEEDEEEGEPEDAELGDEMTDV

hide sequence

Ensembl Acc Id:

ENSRNOP00000020909 ⟸ ENSRNOT00000020909

Ensembl Acc Id:

ENSRNOP00000085767 ⟸ ENSRNOT00000100526

Ensembl Acc Id:

ENSRNOP00000077078 ⟸ ENSRNOT00000115574

Protein Domains

SET

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D3ZII8-F1-model_v2	AlphaFold	D3ZII8	1-417	view protein structure

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Promoters

RGD ID:

13693194

Promoter ID:

EPDNEW_R3719

Type:

multiple initiation site

Name:

Smyd5_1

Description:

SMYD family member 5

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	4	117,215,062 - 117,215,122	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1309153	AgrOrtholog
BioCyc Gene	G2FUF-43942	BioCyc
Ensembl Genes	ENSRNOG00000015589	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000020909.7	UniProtKB/TrEMBL
	ENSRNOT00000100526.1	UniProtKB/TrEMBL
	ENSRNOT00000115574.1	UniProtKB/TrEMBL
Gene3D-CATH	1.10.220.160	UniProtKB/TrEMBL
	2.170.270.10	UniProtKB/TrEMBL
	6.10.140.2220	UniProtKB/TrEMBL
InterPro	SET_dom	UniProtKB/TrEMBL
	SET_dom_sf	UniProtKB/TrEMBL
	SMYD5_SET	UniProtKB/TrEMBL
KEGG Report	rno:312503	UniProtKB/TrEMBL
NCBI Gene	312503	ENTREZGENE
PANTHER	SET AND MYND DOMAIN-CONTAINING PROTEIN 5	UniProtKB/TrEMBL
	SET AND MYND DOMAIN-CONTAINING PROTEIN 5	UniProtKB/TrEMBL
Pfam	SET	UniProtKB/TrEMBL
PhenoGen	Smyd5	PhenoGen
PROSITE	SET	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000015589	RatGTEx
SMART	SET	UniProtKB/TrEMBL
Superfamily-SCOP	SSF82199	UniProtKB/TrEMBL
UniProt	A0A8I5ZK80_RAT	UniProtKB/TrEMBL
	A0A8I6A432	ENTREZGENE, UniProtKB/TrEMBL
	A6IAR7	ENTREZGENE, UniProtKB/TrEMBL
	D3ZII8	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2013-03-01	Smyd5	SMYD family member 5	Smyd5	SET and MYND domain containing 5	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-04-30	Smyd5	SET and MYND domain containing 5	Smyd5_predicted	SET and MYND domain containing 5 (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Smyd5_predicted	SET and MYND domain containing 5 (predicted)			Symbol and Name status set to approved	70820	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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Imported Disease Annotations - ClinVar