lims2 LIM and senescent cell antigen-like domains 2 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: lims2provided by ZNC
Official Full Name: LIM and senescent cell antigen-like domains 2provided by ZNC
Primary source: ZFIN:ZDB-GENE-050522-56
See related: Ensembl:ENSDARG00000014976 AllianceGenome:ZFIN:ZDB-GENE-050522-56
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: zeh0381; hm:zeh0381; zgc:112257; CH1073-55A19.1
Summary: Predicted to enable metal ion binding activity. Acts upstream of or within heart contraction and regulation of protein kinase B signaling. Predicted to be active in cell-cell junction; cytoplasm; and focal adhesion. Is expressed in adaxial cell; myotome; pectoral fin musculature; and somite. Human ortholog(s) of this gene implicated in autosomal recessive limb-girdle muscular dystrophy type 2W. Orthologous to several human genes including LIMS1 (LIM zinc finger domain containing 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: all
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Genomic context

Location:: chromosome: 9

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	9	NC_007120.7 (94884..100614, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	9	NC_007120.6 (116315..122010, complement)

Chromosome 9 - NC_007120.7 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?

Inactivation of either PINCH isoform independently leads to instability of ILK, loss of stretch-responsive anf and vegf expression, and progressive heart failure[PINCH2]
Title: PINCH proteins regulate cardiac contractility by modulating integrin-linked kinase-protein kinase B signaling.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in cell-cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell-cell junction organization	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within heart contraction	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of integrin-mediated signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of substrate adhesion-dependent cell spreading	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in cell-cell junction	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 focal adhesion	IBA Inferred from Biological aspect of Ancestor more info
located_in focal adhesion	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: LIM and senescent cell antigen-like-containing domain protein 2; LIM and senescent cell antigen-like domains 2

Names: pinch2

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_001020670.2 → NP_001018506.2 LIM and senescent cell antigen-like-containing domain protein 2

Status: VALIDATED

Source sequence(s)

CU638712, FQ377903

Related

ENSDARP00000022426.7, ENSDART00000006099.9

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_007120.7 Reference GRCz11 Primary Assembly

Range

94884..100614 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021478667.1 → XP_021334342.1 LIM and senescent cell antigen-like domains 2 isoform X1

UniProtKB/TrEMBL

A0A8M9PS33

Conserved Domains (5) summary

cd09331
Location:57 → 115

LIM1_PINCH; The first LIM domain of protein PINCH

cd09332
Location:118 → 169

LIM2_PINCH; The second LIM domain of protein PINCH

cd09333
Location:182 → 231

LIM3_PINCH; The third LIM domain of protein PINCH

cd09334
Location:237 → 290

LIM4_PINCH; The fourth LIM domain of protein PINCH

cd09335
Location:298 → 351

LIM5_PINCH; The fifth LIM domain of protein PINCH