Lims2 LIM zinc finger domain containing 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Lims2provided by RGD
Official Full Name: LIM zinc finger domain containing 2provided by RGD
Primary source: RGD:1305273
See related: EnsemblRapid:ENSRNOG00000016021 AllianceGenome:RGD:1305273
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable metal ion binding activity. Predicted to be involved in several processes, including cell-cell junction organization; positive regulation of integrin-mediated signaling pathway; and positive regulation of substrate adhesion-dependent cell spreading. Predicted to act upstream of or within negative regulation of apoptotic process and negative regulation of cell population proliferation. Predicted to be located in plasma membrane. Predicted to be active in cell-cell junction; cytoplasm; and focal adhesion. Human ortholog(s) of this gene implicated in autosomal recessive limb-girdle muscular dystrophy type 2W. Orthologous to human LIMS2 (LIM zinc finger domain containing 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Heart (RPKM 548.5), Kidney (RPKM 133.8) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 18p12

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	18	NC_086036.1 (23828164..23866363)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	18	NC_051353.1 (23553937..23592137)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	18	NC_005117.4 (24707951..24746159)

Chromosome 18 - NC_086036.1 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: 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

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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 RGD

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
acts_upstream_of_or_within cell-cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in cell-cell junction organization	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within cell-cell junction organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of cholangiocyte proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of integrin-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of cholangiocyte proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of hepatocyte proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of neural precursor cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of neural precursor cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of integrin-mediated signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive regulation of integrin-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of substrate adhesion-dependent cell spreading	IBA Inferred from Biological aspect of Ancestor more info

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	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	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

Names: LIM and senescent cell antigen like domains 2; LIM-type zinc finger domains 2

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_001012163.2 → NP_001012163.2 LIM and senescent cell antigen-like-containing domain protein 2 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000018

UniProtKB/TrEMBL

A0A0G2KAE1, A0A8I6GK29, A6J2P7

Conserved Domains (5) summary

cd09331
Location:10 → 68

LIM1_PINCH; The first LIM domain of protein PINCH

cd09332
Location:71 → 122

LIM2_PINCH; The second LIM domain of protein PINCH

cd09333
Location:135 → 185

LIM3_PINCH; The third LIM domain of protein PINCH

cd09334
Location:191 → 244

LIM4_PINCH; The fourth LIM domain of protein PINCH

cd09335
Location:252 → 305

LIM5_PINCH; The fifth LIM domain of protein PINCH
NM_001415697.1 → NP_001402626.1 LIM and senescent cell antigen-like-containing domain protein 2 isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000018

UniProtKB/TrEMBL

A6J2P6

Related

ENSRNOP00000075365.3, ENSRNOT00000090923.3
NM_001415698.1 → NP_001402627.1 LIM and senescent cell antigen-like-containing domain protein 2 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000018

UniProtKB/TrEMBL

A0A8I6GK29, A6J2P7

Related

ENSRNOP00000092203.1, ENSRNOT00000112249.2