Suv39h1 (SUV39H1 histone lysine methyltransferase) - Rat Genome Database

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Gene: Suv39h1 (SUV39H1 histone lysine methyltransferase) Rattus norvegicus
Analyze
Symbol: Suv39h1
Name: SUV39H1 histone lysine methyltransferase
RGD ID: 1565028
Description: Predicted to enable RNA polymerase II transcription regulatory region sequence-specific DNA binding activity; histone H3K9 trimethyltransferase activity; and histone H3K9me2 methyltransferase activity. Involved in response to amphetamine and response to nutrient levels. Predicted to be located in nucleolus and rDNA heterochromatin. Predicted to be part of eNoSc complex. Predicted to be active in nucleus. Biomarker of pre-malignant neoplasm. Orthologous to human SUV39H1 (SUV39H1 histone lysine methyltransferase); PARTICIPATES IN histone modification pathway; methionine cycle/metabolic pathway; lysine degradation pathway; INTERACTS WITH 1,1-dichloroethene (ortholog); 17beta-estradiol (ortholog); 2,3,7,8-tetrachlorodibenzodioxine (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: histone-lysine N-methyltransferase SUV39H1; LOC302553; RGD1565028; similar to Su(var)3-9 homolog; suppressor of variegation 3-9 homolog 1; suppressor of variegation 3-9 homolog 1 (Drosophila); suppressor of variegation 3-9 homolog 1 (Drosophila)-like 1; suppressor of variegation 3-9 homolog 1-like 1; Suv39h1l1
RGD Orthologs
Human
Mouse
Alliance Orthologs
More Info more info ...
Related Pseudogenes: Suv39h1-ps1  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X17,093,059 - 17,105,942 (+)NCBIGRCr8
mRatBN7.2X14,421,028 - 14,433,993 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX14,421,109 - 14,433,982 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX19,234,405 - 19,247,383 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X20,835,705 - 20,848,683 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X17,100,889 - 17,113,867 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X15,171,280 - 15,185,191 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX15,171,499 - 15,185,191 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X15,953,577 - 15,967,467 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X26,451,917 - 26,464,885 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX14,505,907 - 14,518,876 (+)NCBICelera
Cytogenetic MapXq12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1-dichloroethene  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
all-trans-retinoic acid  (ISO)
Alpinetin  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
azoxystrobin  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (ISO)
bisphenol F  (ISO)
bortezomib  (ISO)
buta-1,3-diene  (ISO)
butanal  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
calcitriol  (ISO)
camptothecin  (ISO)
cannabidiol  (ISO)
carbamazepine  (ISO)
CGP 52608  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
cocaine  (ISO)
copper(II) sulfate  (ISO)
coumarin  (ISO)
coumestrol  (ISO)
cyclosporin A  (ISO)
DDE  (ISO)
deguelin  (ISO)
desferrioxamine B  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diallyl trisulfide  (ISO)
diazinon  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (ISO)
diclofenac  (ISO)
dicrotophos  (ISO)
dioxygen  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
folic acid  (ISO)
FR900359  (ISO)
fulvestrant  (ISO)
glycerol 2-phosphate  (ISO)
L-ascorbic acid  (ISO)
leflunomide  (ISO)
myo-inositol hexakisphosphate  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
ozone  (ISO)
paracetamol  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenethyl isothiocyanate  (ISO)
pirinixic acid  (ISO)
potassium dichromate  (ISO)
propanal  (ISO)
resveratrol  (ISO)
silicon dioxide  (ISO)
sirolimus  (ISO)
sodium arsenite  (ISO)
sunitinib  (ISO)
testosterone  (ISO)
thiram  (ISO)
titanium dioxide  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
Triptolide  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
trovafloxacin  (ISO)
urethane  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Gestational choline supply regulates methylation of histone H3, expression of histone methyltransferases G9a (Kmt1c) and Suv39h1 (Kmt1a), and DNA methylation of their genes in rat fetal liver and brain. Davison JM, etal., J Biol Chem. 2009 Jan 23;284(4):1982-9. doi: 10.1074/jbc.M807651200. Epub 2008 Nov 10.
2. 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.
3. Targeting protein lysine methylation and demethylation in cancers. He Y, etal., Acta Biochim Biophys Sin (Shanghai). 2012 Jan;44(1):70-9. doi: 10.1093/abbs/gmr109.
4. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
5. Histone H3 lysine 9 and H4 lysine 20 trimethylation and the expression of Suv4-20h2 and Suv-39h1 histone methyltransferases in hepatocarcinogenesis induced by methyl deficiency in rats. Pogribny IP, etal., Carcinogenesis. 2006 Jun;27(6):1180-6. Epub 2006 Feb 23.
6. Delta FosB mediates epigenetic desensitization of the c-fos gene after chronic amphetamine exposure. Renthal W, etal., J Neurosci. 2008 Jul 16;28(29):7344-9. doi: 10.1523/JNEUROSCI.1043-08.2008.
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Comprehensive gene review and curation RGD comprehensive gene curation
9. Suv39h1 protects from myocardial ischemia-reperfusion injury in diabetic rats. Yang B, etal., Cell Physiol Biochem. 2014;33(4):1176-85. doi: 10.1159/000358686. Epub 2014 Apr 11.
Additional References at PubMed
PMID:12477932   PMID:15769944   PMID:21504832   PMID:27483126   PMID:28361889  


Genomics

Comparative Map Data
Suv39h1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X17,093,059 - 17,105,942 (+)NCBIGRCr8
mRatBN7.2X14,421,028 - 14,433,993 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX14,421,109 - 14,433,982 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX19,234,405 - 19,247,383 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X20,835,705 - 20,848,683 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X17,100,889 - 17,113,867 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X15,171,280 - 15,185,191 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX15,171,499 - 15,185,191 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X15,953,577 - 15,967,467 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X26,451,917 - 26,464,885 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX14,505,907 - 14,518,876 (+)NCBICelera
Cytogenetic MapXq12NCBI
SUV39H1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X48,695,554 - 48,709,016 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX48,695,554 - 48,709,016 (+)EnsemblGRCh38hg38GRCh38
GRCh37X48,553,945 - 48,567,407 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X48,440,075 - 48,452,351 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X48,311,380 - 48,323,651NCBI
CeleraX53,096,600 - 53,108,876 (-)NCBICelera
Cytogenetic MapXp11.23NCBI
HuRefX46,217,119 - 46,229,438 (+)NCBIHuRef
CHM1_1X48,586,299 - 48,598,575 (+)NCBICHM1_1
T2T-CHM13v2.0X48,106,035 - 48,119,497 (+)NCBIT2T-CHM13v2.0
Suv39h1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X7,927,401 - 7,940,994 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX7,927,410 - 7,940,999 (-)EnsemblGRCm39 Ensembl
GRCm38X8,061,171 - 8,074,760 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX8,061,171 - 8,074,760 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X7,638,297 - 7,651,886 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X7,218,263 - 7,231,545 (-)NCBIMGSCv36mm8
CeleraX3,394,838 - 3,408,427 (+)NCBICelera
Cytogenetic MapXA1.1NCBI
cM MapX3.64NCBI

Variants

.
Variants in Suv39h1
40 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X144812931706553Rat
1298071Edpm12Estrogen-dependent pituitary mass QTL 123.2pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)X292789847927898Rat
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X143491017Rat
10755455Coatc13Coat color QTL 130coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7440600049406000Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X449454949494549Rat
634325Bw13Body weight QTL 130body mass (VT:0001259)body weight (CMO:0000012)X144797220991088Rat
631204Gluco15Glucose level QTL 150.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X162371522646544Rat


Expression

RNA-SEQ Expression

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


Ensembl Acc Id: ENSRNOT00000008399   ⟹   ENSRNOP00000008399
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX14,421,109 - 14,433,982 (+)Ensembl
Rnor_6.0 EnsemblX15,171,499 - 15,185,191 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000099347   ⟹   ENSRNOP00000093302
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX14,421,564 - 14,433,970 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000099546   ⟹   ENSRNOP00000085857
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX14,421,536 - 14,433,982 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000100471   ⟹   ENSRNOP00000083881
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX14,422,545 - 14,433,970 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000117343   ⟹   ENSRNOP00000077185
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX14,421,109 - 14,426,763 (+)Ensembl
RefSeq Acc Id: NM_001106956   ⟹   NP_001100426
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X17,093,176 - 17,105,942 (+)NCBI
mRatBN7.2X14,421,227 - 14,433,993 (+)NCBI
Rnor_6.0X15,171,499 - 15,185,191 (+)NCBI
Rnor_5.0X15,953,577 - 15,967,467 (+)NCBI
RGSC_v3.4X26,451,917 - 26,464,885 (+)RGD
CeleraX14,505,907 - 14,518,876 (+)RGD
Sequence:
RefSeq Acc Id: NM_001402447   ⟹   NP_001389376
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X17,093,059 - 17,105,942 (+)NCBI
mRatBN7.2X14,421,110 - 14,433,993 (+)NCBI
RefSeq Acc Id: XM_063279919   ⟹   XP_063135989
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X17,093,251 - 17,103,661 (+)NCBI
RefSeq Acc Id: NP_001100426   ⟸   NM_001106956
- Peptide Label: isoform 1
- UniProtKB: A6KP57 (UniProtKB/TrEMBL),   A0A8I6AJD7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000008399   ⟸   ENSRNOT00000008399
Ensembl Acc Id: ENSRNOP00000085857   ⟸   ENSRNOT00000099546
Ensembl Acc Id: ENSRNOP00000077185   ⟸   ENSRNOT00000117343
Ensembl Acc Id: ENSRNOP00000093302   ⟸   ENSRNOT00000099347
Ensembl Acc Id: ENSRNOP00000083881   ⟸   ENSRNOT00000100471
RefSeq Acc Id: NP_001389376   ⟸   NM_001402447
- Peptide Label: isoform 2
- UniProtKB: G3V6S6 (UniProtKB/TrEMBL),   B1H256 (UniProtKB/TrEMBL),   A0A9K3Y769 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063135989   ⟸   XM_063279919
- Peptide Label: isoform X1
Protein Domains
Chromo   Post-SET   Pre-SET   SET

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V6S6-F1-model_v2 AlphaFold G3V6S6 1-413 view protein structure

Transcriptome

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

Promoters
RGD ID:13701735
Promoter ID:EPDNEW_R12257
Type:initiation region
Name:Suv39h1l1_1
Description:suppressor of variegation 3-9 homolog 1 -like 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X15,171,504 - 15,171,564EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1565028 AgrOrtholog
BioCyc Gene G2FUF-2942 BioCyc
Ensembl Genes ENSRNOG00000039576 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000008399.6 UniProtKB/TrEMBL
  ENSRNOT00000099347.1 UniProtKB/TrEMBL
  ENSRNOT00000099546.1 UniProtKB/TrEMBL
  ENSRNOT00000100471.1 UniProtKB/TrEMBL
  ENSRNOT00000117343.1 UniProtKB/TrEMBL
Gene3D-CATH 2.170.270.10 UniProtKB/TrEMBL
  2.40.50.40 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7364965 IMAGE-MGC_LOAD
InterPro Chromo_domain UniProtKB/TrEMBL
  Chromo_domain/shadow UniProtKB/TrEMBL
  Chromodomain-like UniProtKB/TrEMBL
  Chromodomain_CS UniProtKB/TrEMBL
  H3K9_Histone-Lys_N-MTase UniProtKB/TrEMBL
  Histone_H3-K9_MeTrfase UniProtKB/TrEMBL
  Post-SET_dom UniProtKB/TrEMBL
  Pre-SET_dom UniProtKB/TrEMBL
  SET_dom UniProtKB/TrEMBL
  SET_dom_sf UniProtKB/TrEMBL
KEGG Report rno:302553 UniProtKB/TrEMBL
MGC_CLONE MGC:188237 IMAGE-MGC_LOAD
NCBI Gene 302553 ENTREZGENE
PANTHER HISTONE-LYSINE N-METHYLTRANSFERASE SUV39H UniProtKB/TrEMBL
  HISTONE-LYSINE N-METHYLTRANSFERASE SUV39H1 UniProtKB/TrEMBL
Pfam Chromo UniProtKB/TrEMBL
  Pre-SET UniProtKB/TrEMBL
  SET UniProtKB/TrEMBL
PhenoGen Suv39h1 PhenoGen
PIRSF SUV39_SET UniProtKB/TrEMBL
PROSITE CHROMO_1 UniProtKB/TrEMBL
  CHROMO_2 UniProtKB/TrEMBL
  POST_SET UniProtKB/TrEMBL
  PRE_SET UniProtKB/TrEMBL
  SAM_MT43_SUVAR39_3 UniProtKB/TrEMBL
  SET UniProtKB/TrEMBL
RatGTEx ENSRNOG00000039576 RatGTEx
SMART CHROMO UniProtKB/TrEMBL
  PostSET UniProtKB/TrEMBL
  PreSET UniProtKB/TrEMBL
  SET UniProtKB/TrEMBL
Superfamily-SCOP Chromodomain-like UniProtKB/TrEMBL
  SSF82199 UniProtKB/TrEMBL
UniProt A0A8I5ZJE7_RAT UniProtKB/TrEMBL
  A0A8I6A0U8_RAT UniProtKB/TrEMBL
  A0A8I6A3A4_RAT UniProtKB/TrEMBL
  A0A8I6AJD7 ENTREZGENE, UniProtKB/TrEMBL
  A0A9K3Y769 ENTREZGENE, UniProtKB/TrEMBL
  A6KP57 ENTREZGENE, UniProtKB/TrEMBL
  B1H256 ENTREZGENE, UniProtKB/TrEMBL
  G3V6S6 ENTREZGENE
UniProt Secondary G3V6S6 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-03-15 Suv39h1  SUV39H1 histone lysine methyltransferase  Suv39h1l1  suppressor of variegation 3-9 homolog 1 (Drosophila)-like 1  Name and Symbol changed 629549 APPROVED
2014-07-28 Suv39h1l1  suppressor of variegation 3-9 homolog 1 (Drosophila)-like 1  Suv39h1  suppressor of variegation 3-9 homolog 1 (Drosophila)  Name and Symbol changed 629549 APPROVED
2008-04-30 Suv39h1  suppressor of variegation 3-9 homolog 1 (Drosophila)   Suv39h1_predicted  suppressor of variegation 3-9 homolog 1 (Drosophila) (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Suv39h1_predicted  suppressor of variegation 3-9 homolog 1 (Drosophila) (predicted)  RGD1565028_predicted  similar to Su(var)3-9 homolog (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1565028_predicted  similar to Su(var)3-9 homolog (predicted)  LOC302553  similar to Su(var)3-9 homolog  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC302553  similar to Su(var)3-9 homolog      Symbol and Name status set to provisional 70820 PROVISIONAL