LOC120093070 (PHD finger protein 11-like) - Rat Genome Database

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Gene: LOC120093070 (PHD finger protein 11-like) Rattus norvegicus
Analyze
Symbol: LOC120093070 (Ensembl: Setdb2)
Name: PHD finger protein 11-like (Ensembl:SET domain bifurcated histone lysine methyltransferase 2)
RGD ID: 40946148
Description: Predicted to enable DNA binding activity and zinc ion binding activity. Predicted to be involved in cell division; chromatin remodeling; and negative regulation of DNA-templated transcription. Predicted to be located in chromosome and nucleus.
Type: protein-coding
RefSeq Status: VALIDATED
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81537,702,585 - 37,730,874 (-)NCBIGRCr8
mRatBN7.21533,526,380 - 33,549,382 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1533,453,952 - 33,606,470 (-)EnsemblmRatBN7.2 Ensembl
Cytogenetic Map15p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromosome  (IEA)
nucleus  (IBA,IEA)

Molecular Function

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.

Genomics

Variants

.
Variants in LOC120093070
89 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15142356671Rat
10755503Bp391Blood pressure QTL 3912.37arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)152024860037896129Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)152803066582262678Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15134723002Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1530632945306329Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15134723002Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151111114256111142Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15134723002Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)152803066582262678Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15141686771Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15226636846921453Rat
152025253Hrtrt24Heart rate QTL 243.82heart pumping trait (VT:2000009)152788577486257085Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152211793367117933Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)151985656646187442Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)15553075650530756Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)151985656634924750Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)152803066582262678Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSRNOT00000015412   ⟹   ENSRNOP00000015412
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1533,555,041 - 33,570,571 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000036781   ⟹   ENSRNOP00000036240
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1533,563,394 - 33,606,470 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000071919   ⟹   ENSRNOP00000065027
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1533,530,525 - 33,606,470 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000074587   ⟹   ENSRNOP00000066366
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1533,574,035 - 33,606,470 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000094078   ⟹   ENSRNOP00000084411
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1533,488,292 - 33,606,470 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000095736   ⟹   ENSRNOP00000092797
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1533,453,952 - 33,549,188 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000110448   ⟹   ENSRNOP00000084130
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1533,526,409 - 33,549,188 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000112465   ⟹   ENSRNOP00000091454
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1533,453,952 - 33,473,651 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000120126   ⟹   ENSRNOP00000086164
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1533,526,409 - 33,547,555 (-)Ensembl
RefSeq Acc Id: NM_001419888   ⟹   NP_001406817
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81537,702,585 - 37,725,410 (-)NCBI
mRatBN7.21533,526,385 - 33,549,212 (-)NCBI
RefSeq Acc Id: XM_039093891   ⟹   XP_038949819
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81537,702,585 - 37,730,874 (-)NCBI
mRatBN7.21533,526,380 - 33,549,382 (-)NCBI
RefSeq Acc Id: XM_039093892   ⟹   XP_038949820
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81537,703,154 - 37,730,874 (-)NCBI
mRatBN7.21533,526,895 - 33,549,382 (-)NCBI
RefSeq Acc Id: XP_038949819   ⟸   XM_039093891
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AHQ0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038949820   ⟸   XM_039093892
- Peptide Label: isoform X2
Ensembl Acc Id: ENSRNOP00000091454   ⟸   ENSRNOT00000112465
Ensembl Acc Id: ENSRNOP00000086164   ⟸   ENSRNOT00000120126
Ensembl Acc Id: ENSRNOP00000092797   ⟸   ENSRNOT00000095736
Ensembl Acc Id: ENSRNOP00000084411   ⟸   ENSRNOT00000094078
Ensembl Acc Id: ENSRNOP00000015412   ⟸   ENSRNOT00000015412
Ensembl Acc Id: ENSRNOP00000084130   ⟸   ENSRNOT00000110448
Ensembl Acc Id: ENSRNOP00000065027   ⟸   ENSRNOT00000071919
Ensembl Acc Id: ENSRNOP00000066366   ⟸   ENSRNOT00000074587
Ensembl Acc Id: ENSRNOP00000036240   ⟸   ENSRNOT00000036781
RefSeq Acc Id: NP_001406817   ⟸   NM_001419888
- UniProtKB: A0A8I6A0M0 (UniProtKB/TrEMBL)
Protein Domains
MBD   PHD-type   Pre-SET   SET

Transcriptome

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


Additional Information

Database Acc Id Source(s)
BioCyc Gene G2FUF-13553 BioCyc
Ensembl Genes ENSRNOG00000021680 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000074587.4 UniProtKB/TrEMBL
  ENSRNOT00000095736.1 UniProtKB/TrEMBL
  ENSRNOT00000110448.1 UniProtKB/TrEMBL
  ENSRNOT00000112465.1 UniProtKB/TrEMBL
  ENSRNOT00000120126.1 UniProtKB/TrEMBL
Gene3D-CATH 2.170.270.10 UniProtKB/TrEMBL
  3.30.40.10 UniProtKB/TrEMBL
InterPro DNA-bd_dom_sf UniProtKB/TrEMBL
  EPHD UniProtKB/TrEMBL
  Methyl_CpG_DNA-bd UniProtKB/TrEMBL
  PHD-type_Zinc_Finger UniProtKB/TrEMBL
  Pre-SET_dom UniProtKB/TrEMBL
  SET_dom UniProtKB/TrEMBL
  SET_dom_sf UniProtKB/TrEMBL
  SETDB1/2-like_MBD UniProtKB/TrEMBL
  SETDB_methyltransferase UniProtKB/TrEMBL
  Znf_FYVE_PHD UniProtKB/TrEMBL
  Znf_PHD UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
NCBI Gene LOC120093070 ENTREZGENE
PANTHER HISTONE-LYSINE N-METHYLTRANSFERASE EGGLESS UniProtKB/TrEMBL
  HISTONE-LYSINE N-METHYLTRANSFERASE SETDB2 UniProtKB/TrEMBL
  PHD FINGER PROTEIN UniProtKB/TrEMBL
  PHD FINGER PROTEIN 11 UniProtKB/TrEMBL
Pfam MBD UniProtKB/TrEMBL
  Pre-SET UniProtKB/TrEMBL
  SET UniProtKB/TrEMBL
  zf-HC5HC2H UniProtKB/TrEMBL
PhenoGen LOC120093070 PhenoGen
PROSITE EPHD UniProtKB/TrEMBL
  MBD UniProtKB/TrEMBL
  PRE_SET UniProtKB/TrEMBL
  SET UniProtKB/TrEMBL
RatGTEx ENSRNOG00000021680 RatGTEx
SMART MBD UniProtKB/TrEMBL
  PHD UniProtKB/TrEMBL
  PreSET UniProtKB/TrEMBL
  SET UniProtKB/TrEMBL
Superfamily-SCOP SSF54171 UniProtKB/TrEMBL
  SSF57903 UniProtKB/TrEMBL
  SSF82199 UniProtKB/TrEMBL
UniProt A0A8I6A0M0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A0Q2_RAT UniProtKB/TrEMBL
  A0A8I6AC33_RAT UniProtKB/TrEMBL
  A0A8I6AHQ0 ENTREZGENE, UniProtKB/TrEMBL
  M0RA29_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-01-26 LOC120093070  PHD finger protein 11-like      Symbol and Name status set to provisional 70820 PROVISIONAL