Otog otogelin [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Otogprovided by RGD
Official Full Name: otogelinprovided by RGD
Primary source: RGD:1306610
See related: EnsemblRapid:ENSRNOG00000010983 AllianceGenome:RGD:1306610
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable structural molecule activity. Predicted to be involved in L-arabinose metabolic process. Predicted to act upstream of or within several processes, including adult locomotory behavior; inner ear receptor cell stereocilium organization; and vibrational conductance of sound to the inner ear. Predicted to be located in cytosol. Predicted to be active in extracellular matrix and extracellular space. Human ortholog(s) of this gene implicated in autosomal recessive nonsyndromic deafness 18B. Orthologous to human OTOG (otogelin). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Testes (RPKM 11.4) and Kidney (RPKM 8.1) See more
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 1q22

Exon count:: 57

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (105882747..105951825)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (96746336..96815416)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (102258124..102327201)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables alpha-L-arabinofuranosidase activity	IEA Inferred from Electronic Annotation more info
enables structural molecule activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in L-arabinose metabolic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within adult locomotory behavior	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inner ear receptor cell stereocilium organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein localization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within sensory perception of sound	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within vibrational conductance of sound to the inner ear	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytosol	ISO Inferred from Sequence Orthology more info
is_active_in extracellular matrix	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular matrix	ISO Inferred from Sequence Orthology more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info

General protein information

Go to the top of the page Help

Preferred Names: otogelin

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001106262.1 → NP_001099732.1 otogelin precursor

See identical proteins and their annotated locations for NP_001099732.1

Status: PROVISIONAL

Source sequence(s)

CH473979

UniProtKB/TrEMBL

A6JBB7, D3ZCV6

Related

ENSRNOP00000062329.1, ENSRNOT00000068434.3

Conserved Domains (8) summary

smart00041
Location:2819 → 2901

CT; C-terminal cystine knot-like domain (CTCK)

smart00216
Location:968 → 1122

VWD; von Willebrand factor (vWF) type D domain

smart00832
Location:1157 → 1231

C8; This domain contains 8 conserved cysteine residues

pfam00094
Location:505 → 660

VWD; von Willebrand factor type D domain

pfam01826
Location:771 → 835

TIL; Trypsin Inhibitor like cysteine rich domain

pfam08742
Location:339 → 403

C8; C8 domain

cl17735
Location:467 → 502

VWC; von Willebrand factor type C domain

cl23781
Location:1296 → 1387

Fascin; Fascin-like domain; members include actin-bundling/crosslinking proteins facsin, histoactophilin and singed; identified in sea urchin, Drosophila, Xenopus, rodents, and humans; The fascin-like domain adopts a beta-trefoil topology and contains an ...