Or6c1h (olfactory receptor family 6 subfamily C member 1H) - Rat Genome Database

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Pathways
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Gene: Or6c1h (olfactory receptor family 6 subfamily C member 1H) Rattus norvegicus
Analyze
Symbol: Or6c1h
Name: olfactory receptor family 6 subfamily C member 1H
RGD ID: 1334017
Description: Predicted to enable olfactory receptor activity. Predicted to be involved in G protein-coupled receptor signaling pathway and detection of chemical stimulus involved in sensory perception of smell. Predicted to be located in plasma membrane. Orthologous to human OR6C1 (olfactory receptor family 6 subfamily C member 1); INTERACTS WITH bisphenol A; cadmium dichloride; vinclozolin.
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: olfactory receptor 896; olfactory receptor gene Olr896; olfactory receptor Olr896; Olr896
RGD Orthologs
Human
Mouse
Dog
Pig
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr872,727,844 - 2,728,794 (+)NCBIGRCr8
mRatBN7.272,099,351 - 2,100,301 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl72,092,631 - 2,101,801 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx74,925,809 - 4,926,759 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.076,801,478 - 6,802,428 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.077,085,880 - 7,086,830 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.075,195,005 - 5,195,955 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl75,195,005 - 5,195,955 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.075,184,683 - 5,185,633 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.473,322,666 - 3,323,616 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.173,322,665 - 3,323,616 (-)NCBI
Celera711,037,965 - 11,038,915 (+)NCBICelera
Cytogenetic Map7q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
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. Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Gibbs RA, etal., Nature 2004 Apr 1;428(6982):493-521.
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Or6c1h
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr872,727,844 - 2,728,794 (+)NCBIGRCr8
mRatBN7.272,099,351 - 2,100,301 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl72,092,631 - 2,101,801 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx74,925,809 - 4,926,759 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.076,801,478 - 6,802,428 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.077,085,880 - 7,086,830 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.075,195,005 - 5,195,955 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl75,195,005 - 5,195,955 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.075,184,683 - 5,185,633 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.473,322,666 - 3,323,616 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.173,322,665 - 3,323,616 (-)NCBI
Celera711,037,965 - 11,038,915 (+)NCBICelera
Cytogenetic Map7q11NCBI
OR6C1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381255,314,343 - 55,322,364 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1255,314,343 - 55,322,364 (+)EnsemblGRCh38hg38GRCh38
GRCh371255,708,127 - 55,716,148 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361254,000,651 - 54,001,589 (+)NCBINCBI36Build 36hg18NCBI36
Build 341254,000,650 - 54,001,589NCBI
Celera1255,366,602 - 55,367,540 (+)NCBICelera
Cytogenetic Map12q13.2NCBI
HuRef1252,752,899 - 52,753,837 (+)NCBIHuRef
CHM1_11255,681,220 - 55,682,158 (+)NCBICHM1_1
T2T-CHM13v2.01255,280,905 - 55,288,924 (+)NCBIT2T-CHM13v2.0
Or6c1b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3910129,272,683 - 129,273,621 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl10129,263,175 - 129,274,949 (+)EnsemblGRCm39 Ensembl
GRCm3810129,436,814 - 129,437,752 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl10129,427,306 - 129,439,080 (+)EnsemblGRCm38mm10GRCm38
MGSCv3710128,873,870 - 128,874,808 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3610128,839,763 - 128,840,701 (+)NCBIMGSCv36mm8
Celera10131,824,049 - 131,824,987 (+)NCBICelera
Cytogenetic Map10D3NCBI
cM Map1077.33NCBI
OR6C1K
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1331,542,884 - 31,547,012 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl331,546,074 - 31,547,012 (+)EnsemblCanFam3.1canFam3CanFam3.1
ROS_Cfam_1.0331,281,368 - 31,287,941 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl331,281,368 - 31,282,306 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1331,193,010 - 31,193,948 (-)NCBIUMICH_Zoey_3.1
UU_Cfam_GSD_1.0331,540,852 - 31,541,790 (-)NCBIUU_Cfam_GSD_1.0
LOC110255239
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1520,616,333 - 20,618,035 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1

Variants

.
Variants in Or6c1h
3 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:31
Count of miRNA genes:30
Interacting mature miRNAs:31
Transcripts:ENSRNOT00000040141
Prediction methods: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
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7127829089Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7131962314Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7131962314Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)766427026029351Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system exocrine system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system appendage
High
Medium
Low
Below cutoff 1 1 1 1 1 1 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000040141   ⟹   ENSRNOP00000045099
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl72,092,631 - 2,101,801 (+)Ensembl
Rnor_6.0 Ensembl75,195,005 - 5,195,955 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000061633   ⟹   ENSRNOP00000058348
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl72,092,638 - 2,101,801 (+)Ensembl
RefSeq Acc Id: NM_001000059   ⟹   NP_001000059
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr872,727,844 - 2,728,794 (+)NCBI
mRatBN7.272,099,351 - 2,100,301 (+)NCBI
Rnor_6.075,195,005 - 5,195,955 (-)NCBI
Rnor_5.075,184,683 - 5,185,633 (-)NCBI
RGSC_v3.473,322,666 - 3,323,616 (-)RGD
Celera711,037,965 - 11,038,915 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001000059 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000045099
  ENSRNOP00000045099.3
  ENSRNOP00000058348.4
Reference Protein Sequences
RefSeq Acc Id: NP_001000059   ⟸   NM_001000059
- UniProtKB: D4AAQ3 (UniProtKB/TrEMBL),   M0R7S7 (UniProtKB/TrEMBL),   D3ZJN8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000045099   ⟸   ENSRNOT00000040141
RefSeq Acc Id: ENSRNOP00000058348   ⟸   ENSRNOT00000061633
Protein Domains
G-protein coupled receptors family 1 profile

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4AAQ3-F1-model_v2 AlphaFold D4AAQ3 1-316 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:1334017 AgrOrtholog
BioCyc Gene G2FUF-35294 BioCyc
Ensembl Genes ENSRNOG00000031510 Ensembl
  ENSRNOG00000069127 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000040141 ENTREZGENE
  ENSRNOT00000040141.4 UniProtKB/TrEMBL
  ENSRNOT00000061633.4 UniProtKB/TrEMBL
Gene3D-CATH Rhodopsin 7-helix transmembrane proteins UniProtKB/TrEMBL
InterPro 7TM_GPCR_Rhodpsn UniProtKB/TrEMBL
  GPCR_Rhodpsn_supfam UniProtKB/TrEMBL
  Olfact_rcpt UniProtKB/TrEMBL
  Olfact_rcpt_6C-like UniProtKB/TrEMBL
KEGG Report rno:288813 UniProtKB/TrEMBL
NCBI Gene 288813 ENTREZGENE
PANTHER OLFACTORY RECEPTOR UniProtKB/TrEMBL
  OLFACTORY RECEPTOR 6C1 UniProtKB/TrEMBL
Pfam 7tm_4 UniProtKB/TrEMBL
PhenoGen Or6c1h PhenoGen
PRINTS GPCRRHODOPSN UniProtKB/TrEMBL
  OLFACTORYR UniProtKB/TrEMBL
PROSITE G_PROTEIN_RECEP_F1_1 UniProtKB/TrEMBL
  G_PROTEIN_RECEP_F1_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000031510 RatGTEx
  ENSRNOG00000069127 RatGTEx
Superfamily-SCOP Family A G protein-coupled receptor-like UniProtKB/TrEMBL
UniProt D3ZJN8 ENTREZGENE, UniProtKB/TrEMBL
  D4AAQ3 ENTREZGENE
  M0R7S7 ENTREZGENE
UniProt Secondary D4AAQ3 UniProtKB/TrEMBL
  M0R7S7 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-08-16 Or6c1h  olfactory receptor family 6 subfamily C member 1H  Olr896  olfactory receptor 896  Symbol and Name Changed 1299863 APPROVED
2008-04-30 Olr896  olfactory receptor 896   Olr896_predicted  olfactory receptor 896 (predicted)  'predicted' is removed 2292626 APPROVED
2005-02-04 Olr896_predicted  olfactory receptor 896 (predicted)      Symbol and Name status set to approved 70820 APPROVED