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LIMS4 LIM zinc finger domain containing 4 [ Homo sapiens (human) ]

Gene ID: 100288695, updated on 11-Apr-2024

Summary

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Official Symbol
LIMS4provided by HGNC
Official Full Name
LIM zinc finger domain containing 4provided by HGNC
Primary source
HGNC:HGNC:39941
See related
Ensembl:ENSG00000256671 AllianceGenome:HGNC:39941
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LIMS3L
Summary
Predicted to enable metal ion binding activity. Predicted to be located in cytoplasm; focal adhesion; and plasma membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in endometrium (RPKM 15.2), adrenal (RPKM 6.4) and 24 other tissues See more
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Genomic context

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Location:
2q13
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (110359127..110473075, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (110797583..110895544, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (111203460..111230652, complement)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124906061 Neighboring gene uncharacterized LOC105375809 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:111104024-111104707 Neighboring gene zinc finger protein 532 pseudogene Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:111129727-111130460 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:111130461-111131196 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:111131197-111131930 Neighboring gene long intergenic non-protein coding RNA 1106 Neighboring gene zinc finger and BTB domain containing 45 pseudogene 2 Neighboring gene glycosylphosphatidylinositol anchor attachment protein 1 homolog (yeast) pseudogene Neighboring gene glycosylphosphatidylinositol anchor attachment 1 pseudogene 2 Neighboring gene uncharacterized LOC124906063 Neighboring gene uncharacterized LOC105373552 Neighboring gene uncharacterized LOC102724875 Neighboring gene RANBP2 like and GRIP domain containing 6 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:111339275-111339775 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:111367745-111368317

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. Hillier LW, et al. Nature, 2005 Apr 7. PMID 15815621
  2. Molecular Characterization of the Oncogene BTF3 and Its Targets in Colorectal Cancer. Wang H, et al. Front Cell Dev Biol, 2020. PMID 33644029, Free PMC Article
  3. A proteome-scale map of the human interactome network. Rolland T, et al. Cell, 2014 Nov 20. PMID 25416956, Free PMC Article
  4. A reference map of the human binary protein interactome. Luck K, et al. Nature, 2020 Apr. PMID 32296183, Free PMC Article
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ59124, MGC120847

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Component Evidence Code Pubs
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 4
Names
LIM and senescent cell antigen-like domains 3-like
LIM and senescent cell antigen-like-containing domain protein 3-like
LIM-type zinc finger domains 4
particularly interesting new Cys-His protein 3

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)

  1. NM_001205288.2 → NP_001192217.1  LIM and senescent cell antigen-like-containing domain protein 4 isoform 1

    See identical proteins and their annotated locations for NP_001192217.1

    Status: VALIDATED

    Source sequence(s)
    AC108938
    Consensus CDS
    CCDS54387.1
    UniProtKB/Swiss-Prot
    A0A0A6YYD2, B4DPH6, C9K0W2, P0CW19, P0CW20, Q9HB10
    UniProtKB/TrEMBL
    B2R5G4
    Related
    ENSP00000404432.2, ENST00000413601.3
    Conserved Domains (1) summary
    cl02475
    Location:72 → 114
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

  2. NM_001371340.3 → NP_001358269.1  LIM and senescent cell antigen-like-containing domain protein 4 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC108938, AC112229
    Consensus CDS
    CCDS92838.1
    UniProtKB/TrEMBL
    A0A0J9YXC7
    Related
    ENSP00000488340.1, ENST00000632897.2
    Conserved Domains (5) summary
    cd09331
    Location:72 → 130
    LIM1_PINCH; The first LIM domain of protein PINCH
    cd09332
    Location:133 → 184
    LIM2_PINCH; The second LIM domain of protein PINCH
    cd09333
    Location:197 → 247
    LIM3_PINCH; The third LIM domain of protein PINCH
    cd09334
    Location:253 → 306
    LIM4_PINCH; The fourth LIM domain of protein PINCH
    cd09335
    Location:314 → 367
    LIM5_PINCH; The fifth LIM domain of protein PINCH

RNA

  1. NR_038099.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC108938, AC112229

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    110359127..110473075 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017003105.3 → XP_016858594.1  LIM and senescent cell antigen-like-containing domain protein 4 isoform X2

  2. XM_017003103.3 → XP_016858592.1  LIM and senescent cell antigen-like-containing domain protein 4 isoform X1

  3. XM_017003104.3 → XP_016858593.1  LIM and senescent cell antigen-like-containing domain protein 4 isoform X3

  4. XM_047442254.1 → XP_047298210.1  LIM and senescent cell antigen-like-containing domain protein 4 isoform X4

RNA

  1. XR_007068194.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    110797583..110895544 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054340071.1 → XP_054196046.1  LIM and senescent cell antigen-like-containing domain protein 4 isoform X2

  2. XM_054340072.1 → XP_054196047.1  LIM and senescent cell antigen-like-containing domain protein 4 isoform X3

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P0CW20.1 GenPept UniProtKB/Swiss-Prot:P0CW20

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