olfm1b olfactomedin 1b [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: olfm1bprovided by ZNC
Official Full Name: olfactomedin 1bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-040801-228
See related: Ensembl:ENSDARG00000014053 AllianceGenome:ZFIN:ZDB-GENE-040801-228
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: zgc:92039; wu:fd59h02; si:ch211-11g18.1
Summary: Predicted to be involved in signal transduction. Predicted to be located in extracellular region and synapse. Predicted to be active in extracellular space. Is expressed in several structures, including dorsolateral placode; nervous system; optic cup; optic vesicle; and pronephros. Orthologous to human OLFM1 (olfactomedin 1). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 21

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	21	NC_007132.7 (6751424..6813561)
105	previous assembly	GRCz10 (GCF_000002035.5)	21	NC_007132.6 (6829173..6891310)

Chromosome 21 - NC_007132.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Olfm1 may regulate receptor trafficking from the intracellular compartments to the synaptic membrane microdomain
Title: Impaired AMPA receptor trafficking by a double knockout of zebrafish olfactomedin1a/b.
variants of olfm1 mRNA are present mainly in neurogenic zebrafish tissues and demonstrated overlapping expression patterns
Title: Expression patterns of alternative transcripts of the zebrafish olfactomedin 1 genes.

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables molecular_function	ND No biological Data available more info

Process	Evidence Code	Pubs
involved_in signal transduction	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in extracellular region	IEA Inferred from Electronic Annotation more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in synapse	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: olfactomedin 1b

NCBI Reference Sequences (RefSeq)

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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_001003486.2 → NP_001003486.1 olfactomedin 1b isoform 3 precursor

See identical proteins and their annotated locations for NP_001003486.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) differs in the 5' and 3' structures compared to variant 1. The encoded isoform (3) has distinct N- and C-termini, and is shorter than isoform 1.

Source sequence(s)

AL929085, BC078378, EH432606

UniProtKB/TrEMBL

A0A8M1N178, Q6DBT0

Related

ENSDARP00000031076.7, ENSDART00000037265.9

Conserved Domains (1) summary

pfam12308
Location:27 → 124

Noelin-1; Neurogenesis glycoprotein
NM_001328414.1 → NP_001315343.1 olfactomedin 1b isoform 1

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes the longest isoform (1).

Source sequence(s)

AL929085, EH493055, EH510545, EH532081, EH589925

UniProtKB/TrEMBL

A0A8M1P3V0, B7ZD15

Related

ENSDARP00000117426.1, ENSDART00000140478.2

Conserved Domains (3) summary

pfam12308
Location:55 → 152

Noelin-1; Neurogenesis glycoprotein

cl02488
Location:93 → 226

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

cl02549
Location:228 → 478

OLF; Olfactomedin-like domain
NM_001328415.1 → NP_001315344.1 olfactomedin 1b isoform 2 precursor

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate 5' terminal exon, resulting in a distinct 5' UTR, and an alternate start codon, compared to variant 1. The encoded isoform (2) has a distinct N-terminus and is shorter than isoform 1.

Source sequence(s)

AL929085, EH432606, EH493055, EH510545, EH532081

UniProtKB/TrEMBL

A0A8M1PAA0, B7ZD17

Related

ENSDARP00000119769.1, ENSDART00000146371.3

Conserved Domains (2) summary

pfam12308
Location:27 → 124

Noelin-1; Neurogenesis glycoprotein

cl02549
Location:200 → 450

OLF; Olfactomedin-like domain