H-InvDB x AHG DB
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H-InvDB_9.0 released on May 27, 2015.
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H-Invitational ID: HIT000265096 Accession number: BC073872 Created date: 26-Mar-2013 Last modified: 27-May-2015
Definition: Similar to Opsin-3; Encephalopsin; Panopsin;
 
 

Transcript original information
Accession number BC073872.1
CAGE tag ID NA
EST ID NA
Clone Number IMAGE:4452104
Experimental resources NBRC: NITE Biological Resource Center  NBRC ; HGPD: Human Gene and Protein Database HGPD ; Antibody: searching human antibodies at "BIO-kaimono.com" Antibody (OPN3) ; Catalog: searching experimental product catalogs at "BIO-kaimono.com" Catalog (OPN3);
Sequence data provider NA
Annotation project NA
Length of cDNA 1816[bp] (No. of exon:3)[A:477 T:500 G:403 C:436]
Devision HUM
Molecular type mRNA
Library origin Cell type NA
Tissue type Kidney, hypernephroma
Develpmental stage NA
Mini-G
Sequence quality information
CDS feature Complete CDS
Kozak sequence NA
PolyA Site: 1785(+) Signal: 1756-1760(+)
Vector/adapter sequence NA
Frame shift NA
Remaining intron NA
Splice site acceptor (NAGNAG) NA
Transcript quality feature NMD predicted; 
Notes NA

Gene structure information  G-integra H-DBAS cDNA-genome alignment
H-Inv cluster ID HIX0023539
Genomic location  G-integra Help Chromosome 1
Location 1q43
Position 241756905- 241803626
Strand -
Possible duplicated location(s) NA
Gene structure 3 exon(s)
Database links RefSeq NA
Ensembl NA
Entrez Gene Entrez Gene ID:23596
KEGG GENES KEGG GENES(23596)
GeneCard GeneCardOPN3*GeneCards is provided free to academic non-profit institutions.
Related H-InvDB links H-DBASH-DBAS G-integraG-integra cDNA-genome alignmentcDNA-genome alignment

Predicted CDS information
HIP ID HIP000138681
Predicted CDS 71..499;  142[aa];  Orientation:+2; 
Codon Adaptation Index (CAI). 0.795

Motif information
ORF

length(142),orf(71:499)
MYSGNRSGGHGYWDGGGAAGAEGPAPAGTLSPAPLFSPGTYERLALLLGS
IGLLGVGNNLLVLVLYYKFQRLRTPTHLLLVNISLSDLLVSLFGVTFTFV
SCLRNGWVWDTVGCVWDGFSGSLFASLCGRSSDNSSDQDFKI*
a.a.
length
InterPro Name
length(88), motif(37:124) 88 IPR017452 GPCR, rhodopsin-like, 7TM [Domain]
length(25), motif(43:67) 25 IPR000276 G protein-coupled receptor, rhodopsin-like [Family]
length(57), motif(58:114) 57 IPR017452 GPCR, rhodopsin-like, 7TM [Domain]
length(58), motif(59:116) 58 IPR000276 G protein-coupled receptor, rhodopsin-like [Family]
length(22), motif(76:97) 22 IPR000276 G protein-coupled receptor, rhodopsin-like [Family]

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000265096
H-Inv cluster ID Locus viewHIX0023539
Accession number BC073872.1
CAGE tag ID NA
EST ID NA
Transcript feature  Help NO;  Splicing isoformSplicing isoform
Coding potential  Help Protein coding; 
Definition Similar to Opsin-3; Encephalopsin; Panopsin;
Similarity category  Help Category: Similar to known protein(Category II).
Similar to known protein (Q9H1Y3)  [Identity/coverage = 100.0%/12.44%] to Homo sapiens (Human). protein.
Experimental evidence Protein evidence
PubMed ID 1023400011401433122420081548933416710414ALL
Gene family/group Gene family H-Inv gene family/group ID NA
Gene family/group name NA
Evidence motif (InterPro) ID NA
Gene symbol/name HGNC symbol OPN3
HGNC aliases "encephalopsin"
HGNC name opsin 3
DDBJ OPN3
UniProt OPN3
EC number NA
GGDB
(GlycoGene Database)
Gene symbol NA
Familly NA
Designation NA
Expression NA
KEGG metabolic pathway NA
Protein-protein interaction (PPI) PPI viewer H-Inv protein ID HIP000138681
No. of interaction NA
Interaction partner(s) NA
BIND NA
DIP NA
MINT NA
HPRD NA
IntAct NA
Database links RefSeq NA
Ensembl NA
Entrez Gene Entrez Gene ID:23596
KEGG GENES KEGG GENES(23596)
GeneCard GeneCardOPN3*GeneCards is provided free to academic non-profit institutions.
etc H-GOLDHuman-Gene diversity Of Life-style related Diseases
Curation status Auto-annotated
Notes NA
Related H-InvDB links Gene familyGene family;  Similarity Search ToolSimilarity Search Tool;  TACTTACT
fRNAdb (The functional RNA database) : overlapping fRNAdb entries with H-InvDB transcripts based on the location of the genome. 
NA

Gene ontology information
Molecular function G-protein coupled receptor activity (GO:0004930); 
Biological process G-protein coupled receptor protein signaling pathway (GO:0007186); 
Cellular component integral to membrane (GO:0016021); 

Subcellular localization information  Last modified:27-May-2015
WoLF PSORT plasma membrane;  extracellular;  cytosol;  Other; 
Target P Other
SOSUI membrane protein
TMHMM membrane protein
PTS1 Not targeted
Related H-InvDB links LIFEdb LIFEdb; 
JRE-1.4.0 or later is required. Download JRE at Sun's web site.

Gene expression information  H-ANGEL DNAProbeLocator Last modified:27-May-2015
Tissue-specific expression  H-ANGEL NA
Probe
information DNAProbeLocator
AceGene NA
Affymetrix
GeneChip
HG-Focus NA
HG-U133 NA
HG-U133A NA
HG-U133A_2 NA
HG-U133B NA
HG-U133_Plus_2 NA
HG-U95 NA
HG-U95A NA
HG-U95B NA
HG-U95C NA
HG-U95D NA
HG-U95E NA
HG-U95Av2 NA
HuEx-1_0 2388141;  2388142;  2463486;  2463491;  2463492;  2463510;  2463511;  2463512; 
HuGeneFL NA
Agilent Human 1A Oligo Microarray:PGID215 NA
Whole Human Genome Oligo Microarray:PGID247 NA
Related H-InvDB links H-ANGELH-ANGEL DNAProbeLocatorDNAProbeLocator

Polymorphism (SNP, indel), microsatellite (Short Tandem Repeat, STR) and repeat information  VaryGene Repeat mask viewer
 Single Nucleotide Polymorphism (SNP) and indel  VaryGene
Location Variation dbSNP ID Strand CDS/UTR Translation
205 .. 205 G/A rs141533532 - CDS Synonymous[Ala45Ala]
222 .. 222 T/C rs201734451 - CDS Nonsynonymous[Ile51Thr]
243 .. 243 A/G rs145882594 - CDS Nonsynonymous[Asn58Ser]
257 .. 257 C/A rs137989013 - CDS Nonsynonymous[Leu63Ile]
284 .. 284 C/T rs148814726 - CDS Nonsynonymous[Leu72Phe]
295 .. 295 C/T rs142966339 - CDS Synonymous[Pro75Pro]
299 .. 299 C/T rs149732403 - CDS Nonsynonymous[His77Tyr]
310 .. 310 G/C rs73139034 - CDS Synonymous[Leu80Leu]
451 .. 451 G/A rs201139955 - CDS Synonymous[Leu127Leu]
458 .. 458 A/G rs201882685 - CDS Nonsynonymous[Arg130Gly]
518 .. 518 G/A rs78202695 - 3'UTR
539 .. 539 C/T rs184456341 - 3'UTR
567 .. 567 G/A rs200854997 - 3'UTR
577 .. 577 T/C rs140750839 - 3'UTR
630 .. 630 T/C rs150590672 - 3'UTR
646 .. 646 A/T rs200073477 - 3'UTR
650 .. 650 G/A rs200074626 - 3'UTR
666 .. 666 C/G rs139764256 - 3'UTR
680 .. 680 C/T rs142796416 - 3'UTR
700 .. 700 G/A rs138406816 - 3'UTR
717 .. 717 C/T rs186335153 - 3'UTR
742 .. 742 G/A rs180909883 - 3'UTR
765 .. 765 C/T rs138681461 - 3'UTR
822 .. 822 G/A rs141477839 - 3'UTR
883 .. 883 A/G rs1063816 + 3'UTR
900 .. 900 G/A rs145834329 - 3'UTR
902 .. 902 C/T rs151169647 - 3'UTR
943 .. 943 A/C rs147007550 - 3'UTR
967 .. 967 G/C rs201495076 - 3'UTR
976 .. 976 C/T rs199779503 - 3'UTR
977 .. 977 G/A rs185745993 - 3'UTR
982 .. 982 A/T rs200358884 - 3'UTR
1041 .. 1041 C/G rs141487943 - 3'UTR
1140 .. 1140 C/A rs3765809 - 3'UTR
1215 .. 1215 T/G rs138931305 - 3'UTR
1278 ^ 1279 -/T rs201828384 - 3'UTR
1324 .. 1324 G/A rs113897665 - 3'UTR
1357 .. 1357 G/A rs114951112 - 3'UTR
1463 .. 1463 C/T rs182231413 - 3'UTR
1470 .. 1470 C/T rs115712723 - 3'UTR
1508 .. 1508 G/A rs12405623 - 3'UTR
1686 .. 1686 C/T rs12026448 - 3'UTR
1708 .. 1708 T/G rs61827774 - 3'UTR
1737 .. 1737 T/C rs144936606 - 3'UTR
1747 .. 1747 A/G rs189410467 - 3'UTR
 Microsatellite (Short Tandem Repeat, STR)
No data available
 Microsatellite: Human-Gene diversity Of Life-style related Diseases (H-GOLD)
No data available
 Repeat  Repeat mask viewer
Type Start End Strand
MER34B 1507 1786 +
Database links H-GOLDHuman-Gene diversity Of Life-style related Diseases(H-GOLD)
Related H-InvDB links VaryGeneVaryGene Repeat mask viewerRepeat Mask Viewer