Vom2r5 (vomeronasal 2 receptor, 5) - Rat Genome Database

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Gene: Vom2r5 (vomeronasal 2 receptor, 5) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Vom2r5 (Ensembl: Vom2r6)
Name: vomeronasal 2 receptor, 5 (Ensembl:vomeronasal 2 receptor, 6)
RGD ID: 1585898
Description: Predicted to enable G protein-coupled receptor activity. Predicted to be involved in G protein-coupled receptor signaling pathway. Predicted to be located in plasma membrane; INTERACTS WITH cadmium dichloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC679691; similar to vomeronasal 2, receptor, 1; vomeronasal 2 receptor 5
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr812,973,745 - 2,982,398 (+)NCBIGRCr8
mRatBN7.211,161,906 - 1,170,559 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl11,161,832 - 1,224,262 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1926,070 - 934,721 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.016,926,443 - 6,935,094 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.011,208,156 - 1,216,807 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01804,862 - 813,613 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1804,862 - 813,517 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01792,899 - 801,554 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.411,234,908 - 1,243,561 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera194,686 - 103,431 (+)NCBICelera
Cytogenetic Map1p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model



  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Vom2r5Ratcadmium dichloride increases methylationEXP 6480464Cadmium Chloride results in increased methylation of VOM2R5 promoterCTDPMID:22457795


Biological Process

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Vom2r5RatG protein-coupled receptor signaling pathway involved_inIEAInterPro:IPR000068|InterPro:IPR000337|InterPro:IPR0040731600115GO_REF:0000002InterProGO_REF:0000002
Vom2r5RatG protein-coupled receptor signaling pathway involved_inIEAInterPro:IPR000068|InterPro:IPR000337|InterPro:IPR004073|InterPro:IPR011500|InterPro:IPR0179781600115GO_REF:0000002InterProGO_REF:0000002
Vom2r5RatG protein-coupled receptor signaling pathway involved_inIEAUniProtKB-KW:KW-02971600115GO_REF:0000043UniProtGO_REF:0000043
Vom2r5Ratsignal transduction involved_inIEAUniProtKB-KW:KW-08071600115GO_REF:0000043UniProtGO_REF:0000043

Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Vom2r5Ratmembrane located_inIEAInterPro:IPR000068|InterPro:IPR000337|InterPro:IPR0040731600115GO_REF:0000002InterProGO_REF:0000002
Vom2r5Ratmembrane located_inIEAUniProtKB-SubCell:SL-01621600115GO_REF:0000044UniProtGO_REF:0000044
Vom2r5Ratmembrane located_inIEAInterPro:IPR000068|InterPro:IPR000337|InterPro:IPR004073|InterPro:IPR0179781600115GO_REF:0000002InterProGO_REF:0000002
Vom2r5Ratmembrane located_inIEAUniProtKB-KW:KW-04721600115GO_REF:0000043UniProtGO_REF:0000043
Vom2r5Ratplasma membrane is_active_inIBAMGI:2429498|PANTHER:PTN002373557|RGD:2277|RGD:735077|UniProtKB:P41180|UniProtKB:Q7RTX01600115GO_REF:0000033GO_CentralGO_REF:0000033
Vom2r5Ratplasma membrane located_inIEAUniProtKB-KW:KW-10031600115GO_REF:0000043UniProtGO_REF:0000043
Vom2r5Ratplasma membrane located_inIEAUniProtKB-SubCell:SL-00391600115GO_REF:0000044UniProtGO_REF:0000044

Molecular Function

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Vom2r5RatG protein-coupled receptor activity enablesIEAInterPro:IPR000068|InterPro:IPR000337|InterPro:IPR0040731600115GO_REF:0000002InterProGO_REF:0000002
Vom2r5RatG protein-coupled receptor activity enablesIEAInterPro:IPR000068|InterPro:IPR000337|InterPro:IPR004073|InterPro:IPR011500|InterPro:IPR0179781600115GO_REF:0000002InterProGO_REF:0000002
Vom2r5RatG protein-coupled receptor activity enablesIEAUniProtKB-KW:KW-02971600115GO_REF:0000043UniProtGO_REF:0000043
Vom2r5RatG protein-coupled receptor activity enablesIBAMGI:2429498|MGI:2678394|MGI:2684056|MGI:3642776|MGI:3644483|MGI:3644559|MGI:3645892|MGI:3646522|MGI:3646674|PANTHER:PTN002373557|UniProtKB:P411801600115GO_REF:0000033GO_CentralGO_REF:0000033


#
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
PMID:17382427  



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Variants in Vom2r5
78 total Variants

1 to 10 of 93 rows
Name
Type
Condition(s)
Position(s)
Clinical significance
GRCh38/hg38 17p13.2-13.1(chr17:5732977-8038822)x1 copy number loss See cases [RCV000051043] Chr17:5732977..8038822 [GRCh38]
Chr17:5636297..7942140 [GRCh37]
Chr17:5577021..7882865 [NCBI36]
Chr17:17p13.2-13.1
pathogenic
GRCh38/hg38 17p13.1(chr17:6958978-8335684)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052457]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052457]|See cases [RCV000052457] Chr17:6958978..8335684 [GRCh38]
Chr17:6862297..8239002 [GRCh37]
Chr17:6803021..8179727 [NCBI36]
Chr17:17p13.1
pathogenic
GRCh38/hg38 17p13.2-13.1(chr17:6307904-8842949)x1 copy number loss Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053407]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053407]|See cases [RCV000053407] Chr17:6307904..8842949 [GRCh38]
Chr17:6211224..8746266 [GRCh37]
Chr17:6151948..8686991 [NCBI36]
Chr17:17p13.2-13.1
pathogenic
GRCh38/hg38 17p13.1(chr17:7478195-8435524)x1 copy number loss See cases [RCV000053426] Chr17:7478195..8435524 [GRCh38]
Chr17:7381514..8338842 [GRCh37]
Chr17:7322238..8279567 [NCBI36]
Chr17:17p13.1
pathogenic
GRCh38/hg38 17p13.2-12(chr17:5732953-12095349)x3 copy number gain See cases [RCV000134851] Chr17:5732953..12095349 [GRCh38]
Chr17:5636273..11998666 [GRCh37]
Chr17:5576997..11939391 [NCBI36]
Chr17:17p13.2-12
pathogenic
GRCh38/hg38 17p13.3-13.1(chr17:162016-7697012)x1 copy number loss See cases [RCV000138214] Chr17:162016..7697012 [GRCh38]
Chr17:45835..7600330 [GRCh37]
Chr17:11807..7541055 [NCBI36]
Chr17:17p13.3-13.1
pathogenic
GRCh38/hg38 17p13.2-13.1(chr17:6361393-7750863)x3 copy number gain See cases [RCV000138220] Chr17:6361393..7750863 [GRCh38]
Chr17:6264713..7654181 [GRCh37]
Chr17:6205437..7594906 [NCBI36]
Chr17:17p13.2-13.1
likely pathogenic
GRCh38/hg38 17p13.3-12(chr17:162016-12343901)x3 copy number gain See cases [RCV000138531] Chr17:162016..12343901 [GRCh38]
Chr17:45835..12247218 [GRCh37]
Chr17:11807..12187943 [NCBI36]
Chr17:17p13.3-12
pathogenic
GRCh38/hg38 17p13.1(chr17:7544902-7670581)x3 copy number gain See cases [RCV000139519] Chr17:7544902..7670581 [GRCh38]
Chr17:7448219..7573899 [GRCh37]
Chr17:7388943..7514624 [NCBI36]
Chr17:17p13.1
uncertain significance
GRCh38/hg38 17p13.3-12(chr17:150732-14764202)x3 copy number gain See cases [RCV000142236] Chr17:150732..14764202 [GRCh38]
Chr17:525..14667519 [GRCh37]
Chr17:525..14608244 [NCBI36]
Chr17:17p13.3-12
pathogenic
1 to 10 of 93 rows

Predicted Target Of
Summary Value
Count of predictions:49
Count of miRNA genes:45
Interacting mature miRNAs:45
Transcripts:ENSRNOT00000041332
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.


1 to 10 of 10 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
2298546Neuinf4Neuroinflammation QTL 45.1nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1128736750Rat
2313090Bmd69Bone mineral density QTL 694.40.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)1132356093Rat
1578650Bmd6Bone mineral density QTL 612.2femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)150910843284926Rat
1354647Despr8Despair related QTL 80.0000341locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1124744506Rat
1578651Bmd7Bone mineral density QTL 714.2femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)150910843284926Rat
1578669Bss9Bone structure and strength QTL 96.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)150910843284926Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)150910886060548Rat
2313070Bss52Bone structure and strength QTL 524.40.0001body length (VT:0001256)body length (CMO:0000013)1132356093Rat
2313053Bss51Bone structure and strength QTL 513.80.0001tibia length (VT:0004357)tibia length (CMO:0000450)1132356093Rat
738020Pia8Pristane induced arthritis QTL 84.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1165833076Rat

1 to 10 of 10 rows



ectoderm
endocrine system
endoderm
exocrine system
hepatobiliary system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
5 4 2 1 1 3 1 4 1 13 1



Ensembl Acc Id: ENSRNOT00000041332   ⟹   ENSRNOP00000039442
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl11,161,832 - 1,170,598 (+)Ensembl
Rnor_6.0 Ensembl1804,862 - 813,517 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000044187   ⟹   ENSRNOP00000094250
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl11,213,973 - 1,224,262 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000070942   ⟹   ENSRNOP00000064131
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl11,161,906 - 1,224,262 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000110137   ⟹   ENSRNOP00000091616
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl11,161,832 - 1,224,262 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000113016   ⟹   ENSRNOP00000094128
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl11,161,832 - 1,170,598 (+)Ensembl
RefSeq Acc Id: NM_001099462   ⟹   NP_001092932
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr812,973,745 - 2,982,398 (+)NCBI
mRatBN7.211,161,906 - 1,170,559 (+)NCBI
Rnor_6.01804,862 - 813,517 (-)NCBI
Rnor_5.01792,899 - 801,554 (-)NCBI
RGSC_v3.411,234,908 - 1,243,561 (+)RGD
Sequence:
RefSeq Acc Id: XM_017589697   ⟹   XP_017445186
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr812,973,745 - 2,982,398 (+)NCBI
mRatBN7.211,161,906 - 1,170,559 (+)NCBI
Rnor_6.01804,862 - 813,613 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017589698   ⟹   XP_017445187
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr812,973,745 - 2,982,398 (+)NCBI
mRatBN7.211,161,906 - 1,170,559 (+)NCBI
Rnor_6.01804,862 - 813,613 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017589699   ⟹   XP_017445188
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr812,973,745 - 2,982,398 (+)NCBI
mRatBN7.211,161,906 - 1,170,559 (+)NCBI
Rnor_6.01804,862 - 813,613 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039090209   ⟹   XP_038946137
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr812,973,745 - 2,982,398 (+)NCBI
mRatBN7.211,161,906 - 1,170,559 (+)NCBI
RefSeq Acc Id: XM_039090210   ⟹   XP_038946138
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr812,973,745 - 2,981,532 (+)NCBI
mRatBN7.211,161,906 - 1,169,693 (+)NCBI
RefSeq Acc Id: XM_039090211   ⟹   XP_038946139
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr812,973,745 - 2,981,532 (+)NCBI
mRatBN7.211,161,906 - 1,169,693 (+)NCBI
RefSeq Acc Id: XM_063273254   ⟹   XP_063129324
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr812,973,745 - 2,982,398 (+)NCBI
1 to 5 of 13 rows
1 to 5 of 13 rows
RefSeq Acc Id: NP_001092932   ⟸   NM_001099462
- Peptide Label: precursor
- UniProtKB: A0A8I6AFS9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017445187   ⟸   XM_017589698
- Peptide Label: isoform X2
- UniProtKB: A0A8I6AFS9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017445186   ⟸   XM_017589697
- Peptide Label: isoform X3
- UniProtKB: D3ZH81 (UniProtKB/TrEMBL),   A0A8I6AFS9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017445188   ⟸   XM_017589699
- Peptide Label: isoform X4
- UniProtKB: A0A8I6AFS9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000039442   ⟸   ENSRNOT00000041332
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZH81-F1-model_v2 AlphaFold D3ZH81 1-842 view protein structure


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



1 to 37 of 37 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-62492 BioCyc
Ensembl Genes ENSRNOG00000032365 Ensembl
  ENSRNOG00000069767 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00000083545 ENTREZGENE
Ensembl Transcript ENSRNOT00000041332.4 UniProtKB/TrEMBL
  ENSRNOT00000070942.3 UniProtKB/TrEMBL
  ENSRNOT00000110137.1 UniProtKB/TrEMBL
  ENSRNOT00000113016.1 UniProtKB/TrEMBL
  ENSRNOT00000131036 ENTREZGENE
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 679691 ENTREZGENE
PANTHER PTHR24061 UniProtKB/TrEMBL
  VOMERONASAL 2, RECEPTOR 10-RELATED UniProtKB/TrEMBL
Pfam 7tm_3 UniProtKB/TrEMBL
  ANF_receptor UniProtKB/TrEMBL
  NCD3G UniProtKB/TrEMBL
PhenoGen Vom2r5 PhenoGen
PRINTS GPCRMGR UniProtKB/TrEMBL
  VOMERONASL2R UniProtKB/TrEMBL
PROSITE G_PROTEIN_RECEP_F3_4 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000032365 RatGTEx
  ENSRNOG00000069767 RatGTEx
  ENSRNOG00000083545 RatGTEx
Superfamily-SCOP SSF53822 UniProtKB/TrEMBL
UniProt A0A8I6AFS9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AP26 ENTREZGENE, UniProtKB/TrEMBL
  D3ZH81 ENTREZGENE, UniProtKB/TrEMBL
  M0R454_RAT UniProtKB/TrEMBL
1 to 37 of 37 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-05-24 Vom2r5  vomeronasal 2 receptor, 5  LOC682191  similar to vomeronasal 2, receptor, 1  Data merged from RGD:1586899 1643240 APPROVED
2008-07-23 Vom2r5  vomeronasal 2 receptor, 5  LOC679691  similar to vomeronasal 2, receptor, 1  Symbol and Name updated 1299863 APPROVED
2006-11-19 LOC679691  similar to vomeronasal 2, receptor, 1      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC682191  similar to vomeronasal 2, receptor, 1      Symbol and Name status set to provisional 70820 PROVISIONAL