Opn3 (opsin 3) - Rat Genome Database

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Gene: Opn3 (opsin 3) Ictidomys tridecemlineatus
Analyze
Symbol: Opn3
Name: opsin 3
RGD ID: 12458561
Description: ENCODES a protein that exhibits 11-cis retinal binding (inferred); all-trans retinal binding (inferred); G protein-coupled receptor activity (inferred); INVOLVED IN cellular response to UV-A (inferred); G protein-coupled receptor signaling pathway (inferred); keratinocyte differentiation (inferred); ASSOCIATED WITH COVID-19 (ortholog); fumarase deficiency (ortholog); gastrointestinal stromal tumor (ortholog); FOUND IN cytoplasm (inferred); membrane (inferred); plasma membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: opsin 3, transcript variant X1; opsin 3, transcript variant X2; opsin-3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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
(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
(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
(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


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSSTOT00000012708   ⟹   ENSSTOP00000011386
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365268,833,455 - 8,876,729 (+)Ensembl
RefSeq Acc Id: XM_005326574   ⟹   XP_005326631
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440934445,872,261 - 45,913,813 (-)NCBI
SpeTri2.0NW_0049365268,833,495 - 8,876,631 (+)NCBI
Sequence:
RefSeq Acc Id: XM_040278715   ⟹   XP_040134649
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440934445,872,261 - 45,913,815 (-)NCBI
RefSeq Acc Id: XM_040278716   ⟹   XP_040134650
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440934445,872,644 - 45,913,815 (-)NCBI
RefSeq Acc Id: XM_040278717   ⟹   XP_040134651
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440934445,909,368 - 45,913,811 (-)NCBI
Protein Sequences
Protein RefSeqs XP_005326631 (Get FASTA)   NCBI Sequence Viewer  
  XP_040134649 (Get FASTA)   NCBI Sequence Viewer  
  XP_040134650 (Get FASTA)   NCBI Sequence Viewer  
  XP_040134651 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000011386.2
GenBank Protein KAG3257912 (Get FASTA)   NCBI Sequence Viewer  
  KAG3257913 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_005326631   ⟸   XM_005326574
- Peptide Label: isoform X2
- UniProtKB: I3MJN4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040134649   ⟸   XM_040278715
- Peptide Label: isoform X1
RefSeq Acc Id: XP_040134650   ⟸   XM_040278716
- Peptide Label: isoform X3
RefSeq Acc Id: XP_040134651   ⟸   XM_040278717
- Peptide Label: isoform X4
Ensembl Acc Id: ENSSTOP00000011386   ⟸   ENSSTOT00000012708

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000012707 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000012708.3 UniProtKB/TrEMBL
Gene3D-CATH Rhodopsin 7-helix transmembrane proteins UniProtKB/TrEMBL
InterPro GPCR_opsins UniProtKB/TrEMBL
  GPCR_Rhodpsn UniProtKB/TrEMBL
  GPCR_Rhodpsn_7TM UniProtKB/TrEMBL
  Retinal_BS UniProtKB/TrEMBL
NCBI Gene Opn3 ENTREZGENE
PANTHER OPSIN 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 I3MJN4 ENTREZGENE, UniProtKB/TrEMBL