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 (ortholog); all-trans retinal binding (ortholog); INVOLVED IN cellular response to UV-A (ortholog); keratinocyte differentiation (ortholog); negative regulation of apoptotic process (ortholog); ASSOCIATED WITH COVID-19 (ortholog); fumarase deficiency (ortholog); gastrointestinal stromal tumor (ortholog); FOUND IN cytoplasm (ortholog); plasma membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: LOW QUALITY PROTEIN: opsin-3; 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 (-)NCBI
ROS_Cfam_1.0732,817,978 - 32,867,661 (-)NCBI
UMICH_Zoey_3.1732,652,968 - 32,702,181 (-)NCBI
UNSW_CanFamBas_1.0732,677,092 - 32,726,558 (-)NCBI
UU_Cfam_GSD_1.0732,925,094 - 32,974,549 (-)NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

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 (-)NCBI
ROS_Cfam_1.0732,817,978 - 32,867,661 (-)NCBI
UMICH_Zoey_3.1732,652,968 - 32,702,181 (-)NCBI
UNSW_CanFamBas_1.0732,677,092 - 32,726,558 (-)NCBI
UU_Cfam_GSD_1.0732,925,094 - 32,974,549 (-)NCBI
OPN3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1241,628,851 - 241,640,369 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl1241,590,102 - 241,677,376 (-)EnsemblGRCh38hg38GRCh38
GRCh381241,593,124 - 241,640,369 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371241,756,426 - 241,803,671 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361239,823,075 - 239,870,324 (-)NCBINCBI36hg18NCBI36
Build 341238,082,955 - 238,129,652NCBI
Celera1215,011,455 - 215,058,805 (-)NCBI
Cytogenetic Map1q43NCBI
HuRef1212,214,768 - 212,261,760 (-)NCBIHuRef
CHM1_11243,029,126 - 243,076,370 (-)NCBICHM1_1
Opn3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391175,489,987 - 175,520,465 (-)NCBIGRCm39mm39
GRCm39 Ensembl1175,489,987 - 175,520,342 (-)Ensembl
GRCm381175,662,421 - 175,692,901 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1175,662,421 - 175,692,776 (-)EnsemblGRCm38mm10GRCm38
MGSCv371177,592,558 - 177,622,721 (-)NCBIGRCm37mm9NCBIm37
MGSCv361177,499,102 - 177,529,265 (-)NCBImm8
Celera1182,748,089 - 182,778,248 (-)NCBICelera
Cytogenetic Map1H3NCBI
Opn3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21387,589,330 - 87,619,847 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1387,589,333 - 87,619,847 (-)Ensembl
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 (-)NCBIRGSC3.4rn4RGSC3.4
Celera1387,187,867 - 87,218,156 (-)NCBICelera
Cytogenetic Map13q25NCBI
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
PanPan1.11222,136,416 - 222,218,839 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1222,136,422 - 222,184,598 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01217,155,765 - 217,202,577 (-)NCBIMhudiblu_PPA_v0panPan3
Opn3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934445,872,261 - 45,913,815 (-)NCBI
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 (-)NCBI
ChlSab1.1 Ensembl2578,671,600 - 78,719,139 (-)Ensembl
Vero_WHO_p1.0NW_02366605580,804,584 - 80,852,534 (-)NCBI
Opn3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477111,943,894 - 11,991,477 (-)NCBI


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

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


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000015729 Ensembl, ENTREZGENE
NCBI Gene OPN3 ENTREZGENE
VGNC ID VGNC:44130 ENTREZGENE