vim vimentin [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: vimprovided by ZNC
Official Full Name: vimentinprovided by ZNC
Primary source: ZFIN:ZDB-GENE-011212-3
See related: Ensembl:ENSDARG00000010008 AllianceGenome:ZFIN:ZDB-GENE-011212-3
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: cb28
Summary: Acts upstream of or within wound healing. Predicted to be located in intermediate filament. Is expressed in several structures, including axis; integument; midbrain neural keel; nervous system; and neural tube. Human ortholog(s) of this gene implicated in atherosclerosis; autoimmune disease (multiple); and cataract 30. Orthologous to human VIM (vimentin). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 24

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	24	NC_007135.7 (32176028..32192681)
105	previous assembly	GRCz10 (GCF_000002035.5)	24	NC_007135.6 (32261576..32278038)

Chromosome 24 - NC_007135.7 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
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?

Vimentin Localization in the Zebrafish Oral Cavity: A Potential Role in Taste Buds Regeneration.
Title: Vimentin Localization in the Zebrafish Oral Cavity: A Potential Role in Taste Buds Regeneration.
Taken together these findings suggest that reactive oxygen species and vimentin integrate early wound signals to orchestrate the formation of collagen-based projections that guide regenerative growth during efficient wound repair.
Title: Damage-induced reactive oxygen species regulate vimentin and dynamic collagen-based projections to mediate wound repair.
Knockdown of filamin A or vimentin in normal cells profoundly suppresses apical extrusion of the neighbouring transformed cells.
Title: Filamin acts as a key regulator in epithelial defence against transformed cells.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables structural constituent of cytoskeleton	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in intermediate filament organization	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within wound healing	IMP Inferred from Mutant Phenotype more info	PubMed

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

General protein information

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Preferred Names: vimentin

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_131872.2 → NP_571947.1 vimentin

See identical proteins and their annotated locations for NP_571947.1

Status: PROVISIONAL

Source sequence(s)

BC053115

UniProtKB/TrEMBL

Q9YHX5

Related

ENSDARP00000016261.6, ENSDART00000003745.8

Conserved Domains (2) summary

pfam00038
Location:93 → 401

Filament; Intermediate filament protein

pfam04732
Location:5 → 92

Filament_head; Intermediate filament head (DNA binding) region

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_007135.7 Reference GRCz11 Primary Assembly

Range

32176028..32192681

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021470110.1 → XP_021325785.1 vimentin isoform X1

UniProtKB/TrEMBL

A0A8M9PXB1

Conserved Domains (2) summary

pfam00038
Location:93 → 401

Filament; Intermediate filament protein

pfam04732
Location:5 → 92

Filament_head; Intermediate filament head (DNA binding) region