Opn4 (opsin 4) - Rat Genome Database

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Gene: Opn4 (opsin 4) Chinchilla lanigera
Analyze
Symbol: Opn4
Name: opsin 4
RGD ID: 9038150
Description: ENCODES a protein that exhibits 11-cis retinal binding (ortholog); G protein-coupled photoreceptor activity (ortholog); INVOLVED IN detection of temperature stimulus involved in thermoception (ortholog); hyaloid vascular plexus regression (ortholog); optokinetic behavior (ortholog); FOUND IN plasma membrane (ortholog); sperm head plasma membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: melanopsin
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555105,724,120 - 5,736,135 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555105,723,804 - 5,736,070 (+)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

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
Opn4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555105,724,120 - 5,736,135 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555105,723,804 - 5,736,070 (+)NCBIChiLan1.0ChiLan1.0
OPN4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381086,654,547 - 86,666,460 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1086,654,518 - 86,666,460 (+)EnsemblGRCh38hg38GRCh38
GRCh371088,414,304 - 88,426,217 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361088,404,294 - 88,416,197 (+)NCBINCBI36Build 36hg18NCBI36
Build 341088,404,377 - 88,416,192NCBI
Celera1082,417,087 - 82,428,990 (+)NCBICelera
Cytogenetic Map10q23.2NCBI
HuRef1082,268,556 - 82,280,460 (+)NCBIHuRef
CHM1_11088,695,970 - 88,707,871 (+)NCBICHM1_1
T2T-CHM13v2.01087,538,707 - 87,550,619 (+)NCBIT2T-CHM13v2.0
Opn4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391434,312,575 - 34,322,099 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1434,312,575 - 34,322,099 (-)EnsemblGRCm39 Ensembl
GRCm381434,590,618 - 34,600,142 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1434,590,618 - 34,600,142 (-)EnsemblGRCm38mm10GRCm38
MGSCv371435,403,804 - 35,413,328 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361433,421,454 - 33,429,234 (-)NCBIMGSCv36mm8
Celera1430,856,294 - 30,865,818 (-)NCBICelera
Cytogenetic Map14BNCBI
cM Map1420.83NCBI
Opn4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8169,926,638 - 9,935,810 (-)NCBIGRCr8
mRatBN7.2169,920,408 - 9,929,580 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl169,920,491 - 10,005,711 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx169,940,099 - 9,949,239 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01611,084,803 - 11,093,943 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0169,935,147 - 9,944,287 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01610,943,353 - 10,966,602 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1610,943,341 - 10,952,549 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0169,268,356 - 9,277,528 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41610,249,756 - 10,258,923 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11610,249,757 - 10,258,921 (-)NCBI
Celera165,287,559 - 5,296,704 (+)NCBICelera
Cytogenetic Map16p15NCBI
OPN4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2898,650,558 - 98,659,765 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11098,655,877 - 98,665,084 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01083,082,351 - 83,095,161 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1 Ensembl1086,641,746 - 86,653,143 (+)Ensemblpanpan1.1panPan2
OPN4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1434,350,058 - 34,365,410 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl434,355,128 - 34,365,215 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha434,341,511 - 34,356,871 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0434,709,962 - 34,725,323 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl434,715,036 - 34,725,123 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1434,555,991 - 34,571,338 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0434,725,234 - 34,740,584 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0435,230,251 - 35,245,607 (+)NCBIUU_Cfam_GSD_1.0
Opn4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721344,151,328 - 44,162,304 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936804263,720 - 272,132 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936804261,210 - 272,449 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
OPN4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1487,647,238 - 87,658,815 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11487,645,563 - 87,660,820 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21494,902,249 - 94,913,351 (+)NCBISscrofa10.2Sscrofa10.2susScr3
OPN4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1945,199,897 - 45,212,193 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl945,200,707 - 45,211,636 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660485,312,090 - 5,321,780 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Opn4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624841474,035 - 482,475 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624841472,053 - 483,623 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000000235   ⟹   ENSCLAP00000000208
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049555105,724,120 - 5,736,135 (+)Ensembl
RefSeq Acc Id: XM_005407898   ⟹   XP_005407955
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555105,724,120 - 5,736,070 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013506313   ⟹   XP_013361767
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555105,724,120 - 5,736,070 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013506314   ⟹   XP_013361768
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555105,724,605 - 5,736,070 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013506315   ⟹   XP_013361769
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555105,724,556 - 5,736,070 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013506316   ⟹   XP_013361770
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555105,724,138 - 5,736,070 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013506317   ⟹   XP_013361771
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555105,724,122 - 5,736,070 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013506318   ⟹   XP_013361772
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555105,724,120 - 5,736,070 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013506319   ⟹   XP_013361773
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555105,724,120 - 5,736,070 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013506320   ⟹   XP_013361774
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555105,724,120 - 5,733,797 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013506321   ⟹   XP_013361775
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555105,724,120 - 5,736,070 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013506322   ⟹   XP_013361776
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555105,723,804 - 5,736,070 (+)NCBI
Sequence:
RefSeq Acc Id: XR_001231667
Type: NON-CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555105,724,120 - 5,734,255 (+)NCBI
Sequence:
RefSeq Acc Id: XP_005407955   ⟸   XM_005407898
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_013361776   ⟸   XM_013506322
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_013361767   ⟸   XM_013506313
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_013361772   ⟸   XM_013506318
- Peptide Label: isoform X2
- UniProtKB: A0A8C2UKG0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013361773   ⟸   XM_013506319
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_013361775   ⟸   XM_013506321
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_013361774   ⟸   XM_013506320
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_013361771   ⟸   XM_013506317
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_013361770   ⟸   XM_013506316
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_013361769   ⟸   XM_013506315
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_013361768   ⟸   XM_013506314
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSCLAP00000000208   ⟸   ENSCLAT00000000235

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000000204 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000000235 ENTREZGENE
  ENSCLAT00000000235.1 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
  Opsin UniProtKB/TrEMBL
  Retinal_BS UniProtKB/TrEMBL
NCBI Gene Opn4 ENTREZGENE
PANTHER MELANOPSIN UniProtKB/TrEMBL
  OPSIN UniProtKB/TrEMBL
Pfam 7tm_1 UniProtKB/TrEMBL
PRINTS GPCRRHODOPSN UniProtKB/TrEMBL
  OPSIN UniProtKB/TrEMBL
PROSITE G_PROTEIN_RECEP_F1_1 UniProtKB/TrEMBL
  G_PROTEIN_RECEP_F1_2 UniProtKB/TrEMBL
  OPSIN UniProtKB/TrEMBL
SMART 7TM_GPCR_Srsx UniProtKB/TrEMBL
Superfamily-SCOP Family A G protein-coupled receptor-like UniProtKB/TrEMBL
UniProt A0A8C2UKG0 ENTREZGENE, UniProtKB/TrEMBL