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

    Gene ID: 100288695, updated on 10-Dec-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, Dec 2024]
    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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    See LIMS4 in Genome Data Viewer
    Location:
    2q13
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (110359127..110473075, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (110797583..110895544, complement)
    RS_2024_09 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: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 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)

    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_2024_08

    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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