Vom1r54 (vomeronasal 1 receptor 54) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Vom1r54 (vomeronasal 1 receptor 54) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Vom1r54 (Ensembl: Vom1r53)
Name: vomeronasal 1 receptor 54 (Ensembl:vomeronasal 1 receptor 53)
RGD ID: 1308663
Description: Predicted to enable pheromone binding activity. Predicted to be active in plasma membrane; INTERACTS WITH 6-propyl-2-thiouracil; amitrole; pregnenolone 16alpha-carbonitrile.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC365190; V1rl1; V1rm4; vomernasal 1 receptor Vom1r54; vomeronasal 1 receptor, 54; vomeronasal 1 receptor, L1; vomeronasal 1 receptor, M4; vomeronasal type-1 receptor 1; vomeronasal V1r-type receptor V1rm4
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8181,915,905 - 81,916,828 (-)NCBIGRCr8GRCr8GRCr8
mRatBN7.2172,843,741 - 72,844,664 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl172,843,741 - 72,844,664 (-)EnsemblmRatBN7.2
Rnor_6.0166,388,887 - 66,389,811 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0166,414,352 - 66,429,917 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl166,388,887 - 66,389,811 (+)Ensemblrn6Rnor6.0
Rnor_5.0167,186,924 - 67,187,848 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4172,414,197 - 72,415,120 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera160,945,659 - 60,946,511 (+)NCBICelera
RGSC_v3.1172,492,307 - 72,493,231 (-)NCBI
Cytogenetic Map1q21NCBI
JBrowse:




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

References - curated
# Reference Title Reference Citation
1. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:19952141  


Genomics

Variants

.
Variants in Vom1r54
2 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:16
Count of miRNA genes:15
Interacting mature miRNAs:16
Transcripts:ENSRNOT00000072667
Prediction methods:Miranda
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331732Srn4Serum renin concentration QTL 44.467renin activity (VT:0005581)plasma renin activity level (CMO:0000116)14345783787558729Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)151940904101229020Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)139728272132889942Rat
4889929Bss87Bone structure and strength QTL 876.7tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)14630261591302615Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)151941022208479811Rat
1331792Rf29Renal function QTL 294.589urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)14345783787558729Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)14630261591302615Rat
8552900Pigfal1Plasma insulin-like growth factor 1 level QTL 17.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)14350995288509952Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)151940904168768703Rat
1354643Foco2Food consumption QTL 27.170.0001eating behavior trait (VT:0001431)food intake rate (CMO:0000427)14212296887122968Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)14630261591302615Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)14630261591302615Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)166404680111404680Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134184556172281316Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)14630261591302615Rat
631512Scl6Serum cholesterol level QTL 69.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)18126986099645535Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)166009857160501508Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134565911208798288Rat
1331778Rf28Renal function QTL 284.66urine potassium amount (VT:0010539)urine potassium excretion rate (CMO:0000761)14345783787558729Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)14630261591302615Rat
1302788Scl19Serum cholesterol QTL 194.60.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)166400974132889942Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)151511344153680016Rat
1331785Rf27Renal function QTL 274.643urine sodium amount (VT:0006274)urine sodium level (CMO:0000129)13070837587558729Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16540563796805205Rat
4889962Bss94Bone structure and strength QTL 943.8tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)15190920691302615Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)158769992103769992Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)14630261591302615Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)166077886111077886Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)14630261591302615Rat
9589820Insglur3Insulin/glucose ratio QTL 310.750.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)14350995288509952Rat
152025249Scl82Serum cholesterol level QTL 824.77blood cholesterol amount (VT:0000180)152891222109116986Rat
1354599Bw29Body weight QTL 293.460.001body mass (VT:0001259)body weight (CMO:0000012)14212296887122968Rat
4889919Bss86Bone structure and strength QTL 864.1tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)14630261591302615Rat
8552948Pigfal11Plasma insulin-like growth factor 1 level QTL 114.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)14350995288509952Rat


Expression

RNA-SEQ Expression

mesenchyme
renal system
1 1

Sequence


Ensembl Acc Id: ENSRNOT00000038977   ⟹   ENSRNOP00000033014
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl172,843,741 - 72,844,664 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000072667
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl166,388,887 - 66,389,811 (+)Ensembl
RefSeq Acc Id: XM_039097319   ⟹   XP_038953247
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8181,915,905 - 81,916,828 (-)NCBI
mRatBN7.2172,843,741 - 72,844,664 (-)NCBI
Protein Sequences
Protein RefSeqs XP_038953247 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_038953247   ⟸   XM_039097319
- UniProtKB: Q5J3E1 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000033014   ⟸   ENSRNOT00000038977

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5J3E1-F1-model_v2 AlphaFold Q5J3E1 1-317 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)
BioCyc Gene G2FUF-60743 BioCyc
Ensembl Genes ENSRNOG00000046802 Ensembl
  ENSRNOG00000049902 Ensembl
NCBI Gene 365190 ENTREZGENE
PhenoGen Vom1r54 PhenoGen
RatGTEx ENSRNOG00000046802 RatGTEx
  ENSRNOG00000049902 RatGTEx
UniProt Q5J3E1 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-06-08 Vom1r54  vomeronasal 1 receptor, 54      Symbol and Name updated 2325755 APPROVED
2010-05-25 Vom1r54  vomeronasal 1 receptor, 54  Vom1r54  vomeronasal 1 receptor 54  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-25 Vom1r54  vomeronasal 1 receptor 54  V1rm4  vomeronasal 1 receptor, M4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-07-23 V1rm4  vomeronasal 1 receptor, M4    vomeronasal 1 receptor, m4  Name updated 1299863 APPROVED
2008-05-15 V1rm4  vomeronasal 1 receptor, m4  V1rl1_predicted  vomeronasal 1 receptor, L1 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-12 V1rl1_predicted  vomeronasal 1 receptor, L1 (predicted)      Symbol and Name status set to approved 70820 APPROVED