OPN3 (opsin 3) - Rat Genome Database

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Gene: OPN3 (opsin 3) Canis lupus familiaris
Analyze
Symbol: OPN3
Name: opsin 3
RGD ID: 12345444
Description: ENCODES a protein that exhibits 11-cis retinal binding (inferred); all-trans retinal binding (inferred); G protein-coupled photoreceptor activity (inferred); INVOLVED IN cellular response to light stimulus (inferred); cellular response to UV-A (inferred); G protein-coupled receptor signaling pathway (inferred); ASSOCIATED WITH COVID-19 (ortholog); fumarase deficiency (ortholog); gastrointestinal stromal tumor (ortholog); FOUND IN cytoplasm (inferred); membrane (inferred); photoreceptor outer segment (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: opsin 3 (encephalopsin, panopsin); opsin-3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1732,995,047 - 33,040,873 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl732,996,938 - 33,040,876 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha732,468,970 - 32,518,427 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0732,817,978 - 32,867,661 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl732,823,417 - 32,867,883 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1732,652,968 - 32,702,181 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0732,677,092 - 32,726,558 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0732,925,094 - 32,974,549 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
OPN3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1732,995,047 - 33,040,873 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl732,996,938 - 33,040,876 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha732,468,970 - 32,518,427 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0732,817,978 - 32,867,661 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl732,823,417 - 32,867,883 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1732,652,968 - 32,702,181 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0732,677,092 - 32,726,558 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0732,925,094 - 32,974,549 (-)NCBIUU_Cfam_GSD_1.0
OPN3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381241,593,124 - 241,640,369 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1241,628,851 - 241,640,369 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p14 Ensembl1241,590,102 - 241,677,376 (-)EnsemblGRCh38hg38GRCh38
GRCh371241,756,426 - 241,803,671 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361239,823,075 - 239,870,324 (-)NCBINCBI36Build 36hg18NCBI36
Build 341238,082,955 - 238,129,652NCBI
Celera1215,011,455 - 215,058,805 (-)NCBICelera
Cytogenetic Map1q43NCBI
HuRef1212,214,768 - 212,261,760 (-)NCBIHuRef
CHM1_11243,029,126 - 243,076,370 (-)NCBICHM1_1
T2T-CHM13v2.01241,004,525 - 241,051,843 (-)NCBIT2T-CHM13v2.0
Opn3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391175,489,993 - 175,520,198 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1175,489,987 - 175,520,342 (-)EnsemblGRCm39 Ensembl
GRCm381175,662,421 - 175,692,901 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1175,662,421 - 175,692,776 (-)EnsemblGRCm38mm10GRCm38
MGSCv371177,592,558 - 177,622,721 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361177,499,102 - 177,529,265 (-)NCBIMGSCv36mm8
Celera1182,748,089 - 182,778,248 (-)NCBICelera
Cytogenetic Map1H3NCBI
cM Map181.66NCBI
Opn3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81390,121,560 - 90,152,076 (-)NCBIGRCr8
mRatBN7.21387,589,333 - 87,619,847 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1387,589,333 - 87,619,847 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1390,089,224 - 90,119,705 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01391,489,484 - 91,519,964 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01388,668,631 - 88,699,112 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01393,716,481 - 93,746,994 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1393,716,481 - 93,746,994 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01398,180,840 - 98,211,263 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41391,396,311 - 91,427,005 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1387,187,867 - 87,218,156 (-)NCBICelera
Cytogenetic Map13q24NCBI
Opn3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540610,450,768 - 10,493,958 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540610,450,810 - 10,493,958 (+)NCBIChiLan1.0ChiLan1.0
OPN3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v217,506,682 - 7,553,372 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan117,730,302 - 7,777,306 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01217,155,765 - 217,202,577 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11222,136,416 - 222,218,839 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1222,136,422 - 222,184,598 (-)Ensemblpanpan1.1panPan2
Opn3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934445,872,261 - 45,913,815 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365268,833,455 - 8,876,729 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365268,833,495 - 8,876,631 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
OPN3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12578,671,900 - 78,720,697 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2578,671,600 - 78,719,139 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605580,804,584 - 80,852,534 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Opn3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477111,943,914 - 11,991,411 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477111,943,894 - 11,991,477 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in OPN3
371 total Variants

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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 1 17 1 4 1 6 12 8 10 4
Low 4 5 5 5 2 5 6 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_014115010 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038481326 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038481327 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038542683 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038542684 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038568105 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038606830 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038606831 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038671508 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038671509 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005328330 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005362180 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005375328 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005396682 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005429886 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000084 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000093 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000022 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSCAFT00000024909   ⟹   ENSCAFP00000023112
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl732,996,938 - 33,040,876 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845007865   ⟹   ENSCAFP00845006218
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl732,823,417 - 32,867,883 (-)Ensembl
RefSeq Acc Id: XM_014115010   ⟹   XP_013970485
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1732,995,047 - 33,040,873 (-)NCBI
Dog10K_Boxer_Tasha732,468,970 - 32,518,412 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038481326   ⟹   XP_038337254
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1732,652,968 - 32,702,166 (-)NCBI
RefSeq Acc Id: XM_038481327   ⟹   XP_038337255
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1732,697,705 - 32,702,181 (-)NCBI
RefSeq Acc Id: XM_038542683   ⟹   XP_038398611
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0732,925,094 - 32,974,534 (-)NCBI
RefSeq Acc Id: XM_038542684   ⟹   XP_038398612
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0732,970,064 - 32,974,549 (-)NCBI
RefSeq Acc Id: XM_038568105   ⟹   XP_038424033
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha732,513,946 - 32,518,427 (-)NCBI
RefSeq Acc Id: XM_038606830   ⟹   XP_038462758
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0732,677,092 - 32,726,543 (-)NCBI
RefSeq Acc Id: XM_038606831   ⟹   XP_038462759
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0732,722,078 - 32,726,558 (-)NCBI
RefSeq Acc Id: XM_038671508   ⟹   XP_038527436
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0732,817,978 - 32,867,646 (-)NCBI
RefSeq Acc Id: XM_038671509   ⟹   XP_038527437
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0732,863,171 - 32,867,661 (-)NCBI
RefSeq Acc Id: XR_005328330
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1732,652,968 - 32,702,166 (-)NCBI
RefSeq Acc Id: XR_005362180
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0732,925,094 - 32,974,534 (-)NCBI
RefSeq Acc Id: XR_005375328
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha732,468,970 - 32,518,412 (-)NCBI
RefSeq Acc Id: XR_005396682
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0732,677,092 - 32,726,543 (-)NCBI
RefSeq Acc Id: XR_005429886
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0732,817,978 - 32,867,646 (-)NCBI
RefSeq Acc Id: XP_013970485   ⟸   XM_014115010
- Peptide Label: isoform X1
- UniProtKB: A0A8C0RWN7 (UniProtKB/TrEMBL),   A0A8I3RTH5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000023112   ⟸   ENSCAFT00000024909
RefSeq Acc Id: XP_038337254   ⟸   XM_038481326
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038337255   ⟸   XM_038481327
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038462758   ⟸   XM_038606830
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038462759   ⟸   XM_038606831
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038527436   ⟸   XM_038671508
- Peptide Label: isoform X1
- UniProtKB: A0A8C0RWN7 (UniProtKB/TrEMBL),   A0A8I3RTH5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038527437   ⟸   XM_038671509
- Peptide Label: isoform X2
- UniProtKB: A0A8C0NWH5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038424033   ⟸   XM_038568105
- Peptide Label: isoform X2
- UniProtKB: A0A8C0NWH5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038398611   ⟸   XM_038542683
- Peptide Label: isoform X1
- UniProtKB: A0A8C0RWN7 (UniProtKB/TrEMBL),   A0A8I3RTH5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038398612   ⟸   XM_038542684
- Peptide Label: isoform X2
- UniProtKB: A0A8C0NWH5 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845006218   ⟸   ENSCAFT00845007865

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000015729 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030020804 UniProtKB/TrEMBL
  ENSCAFG00040002888 UniProtKB/TrEMBL
  ENSCAFG00845004379 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000024909.5 UniProtKB/TrEMBL
  ENSCAFT00030038167.1 UniProtKB/TrEMBL
  ENSCAFT00030038243.1 UniProtKB/TrEMBL
  ENSCAFT00040005488.1 UniProtKB/TrEMBL
  ENSCAFT00040005493.1 UniProtKB/TrEMBL
  ENSCAFT00845007865 ENTREZGENE
  ENSCAFT00845007865.1 UniProtKB/TrEMBL
Gene3D-CATH Rhodopsin 7-helix transmembrane proteins UniProtKB/TrEMBL
InterPro GPCR_Rhodpsn UniProtKB/TrEMBL
  GPCR_Rhodpsn_7TM UniProtKB/TrEMBL
  Retinal_BS UniProtKB/TrEMBL
NCBI Gene OPN3 ENTREZGENE
PANTHER OPSIN UniProtKB/TrEMBL
  OPSIN-3 UniProtKB/TrEMBL
Pfam 7tm_1 UniProtKB/TrEMBL
PRINTS GPCRRHODOPSN UniProtKB/TrEMBL
PROSITE G_PROTEIN_RECEP_F1_1 UniProtKB/TrEMBL
  G_PROTEIN_RECEP_F1_2 UniProtKB/TrEMBL
  OPSIN UniProtKB/TrEMBL
Superfamily-SCOP Family A G protein-coupled receptor-like UniProtKB/TrEMBL
UniProt A0A8C0NWH5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0P155_CANLF UniProtKB/TrEMBL
  A0A8C0RWN7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3RTH5 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:44130 ENTREZGENE