Vom2r54 (vomeronasal 2 receptor, 54) - Rat Genome Database

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Gene: Vom2r54 (vomeronasal 2 receptor, 54) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Vom2r54
Name: vomeronasal 2 receptor, 54
RGD ID: 1583935
Description: Predicted to enable G protein-coupled receptor activity. Predicted to be involved in G protein-coupled receptor signaling pathway. Predicted to be active in plasma membrane; INTERACTS WITH atrazine; trichloroethene.
Type: protein-coding
RefSeq Status: INFERRED
Previously known as: LOC691438; similar to EC1-V2R pheromone receptor; vomeronasal 2 receptor 54
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8713,535,449 - 13,576,887 (+)NCBIGRCr8
mRatBN7.2712,885,074 - 12,926,512 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl712,884,907 - 12,926,751 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx715,724,793 - 15,733,612 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0717,602,107 - 17,610,926 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0715,476,621 - 15,485,417 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0716,931,774 - 16,966,830 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl716,958,034 - 16,966,830 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0717,089,053 - 17,124,109 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4714,530,348 - 14,539,144 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera711,798,737 - 11,807,533 (+)NCBICelera
Cytogenetic Map7q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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.
2. GOA pipeline RGD automated data pipeline
Additional References at PubMed
PMID:17382427  


Genomics

Variants

.
Variants in Vom2r54
296 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:114
Count of miRNA genes:94
Interacting mature miRNAs:102
Transcripts:ENSRNOT00000034654
Prediction methods:Microtar, Miranda, Rnahybrid
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.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)766427026029351Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7532901950329019Rat
1578652Bmd15Bone mineral density QTL 155.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)7986646760460686Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)7946224698011544Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
10755438Coatc9Coat color QTL 90coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7352928048529280Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7131962314Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)7946224658265113Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7757398552573985Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
10755440Coatc10Coat color QTL 100coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7749649952496499Rat
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7127829089Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7131962314Rat


Expression

RNA-SEQ Expression

endocrine system
endoderm
exocrine system
hepatobiliary system
mesenchyme
reproductive system
1 1 1 1 1 10

Sequence


Ensembl Acc Id: ENSRNOT00000034654   ⟹   ENSRNOP00000031527
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl712,884,907 - 12,926,751 (+)Ensembl
Rnor_6.0 Ensembl716,958,034 - 16,966,830 (+)Ensembl
RefSeq Acc Id: NM_001099494   ⟹   NP_001092964
RefSeq Status: INFERRED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8713,568,091 - 13,576,887 (+)NCBI
mRatBN7.2712,917,716 - 12,926,512 (+)NCBI
Rnor_6.0716,958,034 - 16,966,830 (+)NCBI
Rnor_5.0717,089,053 - 17,124,109 (+)NCBI
RGSC_v3.4714,530,348 - 14,539,144 (+)RGD
Celera711,798,737 - 11,807,533 (+)RGD
Sequence:
RefSeq Acc Id: XM_006241129   ⟹   XP_006241191
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8713,535,449 - 13,576,887 (+)NCBI
mRatBN7.2712,885,074 - 12,926,512 (+)NCBI
Rnor_6.0716,931,774 - 16,966,830 (+)NCBI
Rnor_5.0717,089,053 - 17,124,109 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001092964 (Get FASTA)   NCBI Sequence Viewer  
  XP_006241191 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000031527.5
RefSeq Acc Id: NP_001092964   ⟸   NM_001099494
- UniProtKB: A6KQF8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006241191   ⟸   XM_006241129
- Peptide Label: isoform X1
- UniProtKB: D3ZGS1 (UniProtKB/TrEMBL),   A6KQF8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000031527   ⟸   ENSRNOT00000034654
Protein Domains
G-protein coupled receptors family 3 profile

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZGS1-F1-model_v2 AlphaFold D3ZGS1 1-779 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1583935 AgrOrtholog
BioCyc Gene G2FUF-34764 BioCyc
Ensembl Genes ENSRNOG00000026094 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000034654.5 UniProtKB/TrEMBL
Gene3D-CATH 2.10.50.30 UniProtKB/TrEMBL
  3.40.50.2300 UniProtKB/TrEMBL
InterPro ANF_lig-bd_rcpt UniProtKB/TrEMBL
  GPCR_3 UniProtKB/TrEMBL
  GPCR_3_9-Cys_dom UniProtKB/TrEMBL
  GPCR_3_9-Cys_sf UniProtKB/TrEMBL
  GPCR_3_C UniProtKB/TrEMBL
  GPCR_3_Ca_sens_rcpt-rel UniProtKB/TrEMBL
  GPCR_3_vmron_rcpt_2 UniProtKB/TrEMBL
  Peripla_BP_I UniProtKB/TrEMBL
NCBI Gene 691438 ENTREZGENE
PANTHER EC1-V2R PHEROMONE RECEPTOR PROTEIN-RELATED UniProtKB/TrEMBL
  PTHR24061 UniProtKB/TrEMBL
Pfam 7tm_3 UniProtKB/TrEMBL
  ANF_receptor UniProtKB/TrEMBL
  NCD3G UniProtKB/TrEMBL
PhenoGen Vom2r54 PhenoGen
PRINTS GPCRMGR UniProtKB/TrEMBL
  VOMERONASL2R UniProtKB/TrEMBL
PROSITE G_PROTEIN_RECEP_F3_4 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000026094 RatGTEx
Superfamily-SCOP SSF53822 UniProtKB/TrEMBL
UniProt A6KQF8 ENTREZGENE, UniProtKB/TrEMBL
  D3ZGS1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-07-23 Vom2r54  vomeronasal 2 receptor, 54  LOC691438  similar to EC1-V2R pheromone receptor  Symbol and Name updated 1299863 APPROVED
2006-11-19 LOC691438  similar to EC1-V2R pheromone receptor      Symbol and Name status set to provisional 70820 PROVISIONAL