Opn3 (opsin 3) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Opn3 (opsin 3) Chinchilla lanigera
Analyze
Symbol: Opn3
Name: opsin 3
RGD ID: 8890774
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: Chml; choroideremia-like (Rab escort protein 2); opsin-3
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
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
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
(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
(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
(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
(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
(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


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000012149   ⟹   ENSCLAP00000012008
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495540610,450,768 - 10,493,958 (+)Ensembl
RefSeq Acc Id: XM_005374819   ⟹   XP_005374876
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540610,450,810 - 10,493,958 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013520533   ⟹   XP_013375987
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540610,479,021 - 10,493,958 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005374876 (Get FASTA)   NCBI Sequence Viewer  
  XP_013375987 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_005374876   ⟸   XM_005374819
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_013375987   ⟸   XM_013520533
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSCLAP00000012008   ⟸   ENSCLAT00000012149


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000008288 Ensembl, ENTREZGENE
Ensembl Protein ENSCLAP00000012008 ENTREZGENE
Ensembl Transcript ENSCLAT00000012149 ENTREZGENE
NCBI Gene Chml ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-08-25 Opn3  opsin 3  Chml  choroideremia-like (Rab escort protein 2)  Symbol and/or name change 5135510 APPROVED