atrn attractin [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: atrnprovided by ZNC
Official Full Name: attractinprovided by ZNC
Primary source: ZFIN:ZDB-GENE-090312-21
See related: Ensembl:ENSDARG00000062164 AllianceGenome:ZFIN:ZDB-GENE-090312-21
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: si:dkey-259n11.1
Summary: Acts upstream of or within regulation of actomyosin structure organization. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be active in basement membrane and plasma membrane. Is expressed in blastomere; forebrain; midbrain; and otic vesicle. Orthologous to human ATRN (attractin). [provided by Alliance of Genome Resources, Apr 2022]
Annotation information: Annotation category: partial on reference assembly
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 13

Exon count:: 28

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	13	NC_007124.7 (14006323..14179430)
105	previous assembly	GRCz10 (GCF_000002035.5)	13	NC_007124.6 (13875331..14048438)

Chromosome 13 - NC_007124.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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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?

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables carbohydrate binding	IEA Inferred from Electronic Annotation more info
enables chromatin binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within regulation of actomyosin structure organization	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of actomyosin structure organization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of epiboly involved in gastrulation with mouth forming second	IC Inferred by Curator more info	PubMed

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: attractin

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_001353962.1 → NP_001340891.1 attractin

Status: VALIDATED

Source sequence(s)

CR388098, CR589874, CT583702

UniProtKB/TrEMBL

A0A8N1Z1N4, B8JI13

Related

ENSDARP00000083961.7, ENSDART00000089528.7

Conserved Domains (8) summary

cd03597
Location:740 → 869

CLECT_attractin_like; C-type lectin-like domain (CTLD) of the type found in human and mouse attractin (AtrN) and attractin-like protein (ALP)

cd00041
Location:83 → 197

CUB; CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast.

cd00055
Location:1016 → 1061

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

sd00038
Location:506 → 563

Kelch; KELCH repeat [structural motif]

pfam01344
Location:506 → 558

Kelch_1; Kelch motif

pfam01437
Location:881 → 932

PSI; Plexin repeat

pfam13418
Location:453 → 496

Kelch_4; Galactose oxidase, central domain

cl28614
Location:291 → 440

BTB; Broad-Complex, Tramtrack and Bric a brac

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

NC_007124.7 Reference GRCz11 Primary Assembly

Range

14006323..14179430

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GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCz11 ALT_DRER_TU_1

Genomic

NW_018394873.1 Reference GRCz11 ALT_DRER_TU_1

Range

236277..416029

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GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001145615.1: Suppressed sequence

Description

NM_001145615.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.