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    LIMD2 LIM domain containing 2 [ Homo sapiens (human) ]

    Gene ID: 80774, updated on 17-Jun-2024

    Summary

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    Official Symbol
    LIMD2provided by HGNC
    Official Full Name
    LIM domain containing 2provided by HGNC
    Primary source
    HGNC:HGNC:28142
    See related
    Ensembl:ENSG00000136490 AllianceGenome:HGNC:28142
    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
    Summary
    Predicted to enable metal ion binding activity. Located in cytosol and nucleoplasm. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in lymph node (RPKM 43.3), spleen (RPKM 38.1) and 21 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See LIMD2 in Genome Data Viewer
    Location:
    17q23.3
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (63695888..63701155, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (64566794..64571430, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (61773248..61777485, complement)

    Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene mitogen-activated protein kinase kinase kinase 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12550 Neighboring gene eukaryotic translation elongation factor 1 delta pseudogene 7 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12551 Neighboring gene VISTA enhancer hs1856 Neighboring gene uncharacterized LOC101927898 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12552 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12553 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12554 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:61771715-61772602 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12556 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12557 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12555 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12558 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8826 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8827 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:61777898-61778483 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:61778484-61779068 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8829 Neighboring gene uncharacterized LOC729683 Neighboring gene Sharpr-MPRA regulatory region 9817 Neighboring gene STE20 related adaptor alpha Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:61817285-61817784 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8830 Neighboring gene coiled-coil domain containing 47 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:61850832-61851416

    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. LIM domain-containing 2 (LIMD2) promotes the progress of ovarian cancer via the focal adhesion signaling pathway. Chen L, et al. Bioengineered, 2021 Dec. PMID 34724866, Free PMC Article
    2. LIMD2 Is Overexpressed in BRAF V600E-Positive Papillary Thyroid Carcinomas and Matched Lymph Node Metastases. Pinheiro Dos Santos MJC, et al. Endocr Pathol, 2018 Sep. PMID 29560564
    3. LIMD2 is a small LIM-only protein overexpressed in metastatic lesions that regulates cell motility and tumor progression by directly binding to and activating the integrin-linked kinase. Peng H, et al. Cancer Res, 2014 Mar 1. PMID 24590809, Free PMC Article
    4. LIMD2 targeted by miR‑34a promotes the proliferation and invasion of non‑small cell lung cancer cells. Wang F, et al. Mol Med Rep, 2018 Nov. PMID 30221696
    5. Circular rapid amplification of cDNA ends for high-throughput extension cloning of partial genes. Fu GK, et al. Genomics, 2004 Jul. PMID 15203218

    See all (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. LIMD2 is the Signature of Cell Aging-immune/Inflammation in Acute Myocardial Infarction.
      Title: LIMD2 is the Signature of Cell Aging-immune/Inflammation in Acute Myocardial Infarction.
    2. LIM domain-containing 2 (LIMD2) promotes the progress of ovarian cancer via the focal adhesion signaling pathway.
      Title: LIM domain-containing 2 (LIMD2) promotes the progress of ovarian cancer via the focal adhesion signaling pathway.
    3. the results of the present study revealed that LIMD2 promoted nonsmall cell lung cancer (NSCLC)progression and was regulated by miR34a.
      Title: LIMD2 targeted by miR‑34a promotes the proliferation and invasion of non‑small cell lung cancer cells.
    4. Our data suggest that LIMD2 may play an important role in the metastatic process of papillary thyroid carcinoma
      Title: LIMD2 Is Overexpressed in BRAF V600E-Positive Papillary Thyroid Carcinomas and Matched Lymph Node Metastases.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    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

    • MGC10986

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables actin filament binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in actin filament bundle assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in actin cytoskeleton IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    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
    LIM domain-containing protein 2
    Names
    testicular tissue protein Li 106

    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_030576.4 → NP_085053.1  LIM domain-containing protein 2

      See identical proteins and their annotated locations for NP_085053.1

      Status: VALIDATED

      Source sequence(s)
      AA251318, AC046185, AK092301, CD632650
      Consensus CDS
      CCDS11641.1
      UniProtKB/Swiss-Prot
      D3DU16, Q96S91, Q9BT23
      UniProtKB/TrEMBL
      A0A140VJN0, J3QQM5
      Related
      ENSP00000259006.3, ENST00000259006.8
      Conserved Domains (1) summary
      cd09486
      Location:40 → 92
      LIM_Eplin_like_1; a LIM domain subfamily on a group of proteins with unknown function

    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_000017.11 Reference GRCh38.p14 Primary Assembly

      Range
      63695888..63701155 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005257705.5 → XP_005257762.1  LIM domain-containing protein 2 isoform X1

      See identical proteins and their annotated locations for XP_005257762.1

      UniProtKB/Swiss-Prot
      D3DU16, Q96S91, Q9BT23
      UniProtKB/TrEMBL
      A0A140VJN0, J3QQM5
      Related
      ENSP00000463805.1, ENST00000584645.1
      Conserved Domains (1) summary
      cd09486
      Location:40 → 92
      LIM_Eplin_like_1; a LIM domain subfamily on a group of proteins with unknown function

    2. XM_047436853.1 → XP_047292809.1  LIM domain-containing protein 2 isoform X1

      UniProtKB/Swiss-Prot
      D3DU16, Q96S91, Q9BT23
      UniProtKB/TrEMBL
      A0A140VJN0, J3QQM5
      Related
      ENSP00000462707.1, ENST00000578402.5

    3. XM_006722124.3 → XP_006722187.1  LIM domain-containing protein 2 isoform X1

      See identical proteins and their annotated locations for XP_006722187.1

      UniProtKB/Swiss-Prot
      D3DU16, Q96S91, Q9BT23
      UniProtKB/TrEMBL
      A0A140VJN0, J3QQM5
      Conserved Domains (1) summary
      cd09486
      Location:40 → 92
      LIM_Eplin_like_1; a LIM domain subfamily on a group of proteins with unknown function

    4. XM_005257703.2 → XP_005257760.1  LIM domain-containing protein 2 isoform X1

      See identical proteins and their annotated locations for XP_005257760.1

      UniProtKB/Swiss-Prot
      D3DU16, Q96S91, Q9BT23
      UniProtKB/TrEMBL
      A0A140VJN0, J3QQM5
      Related
      ENSP00000464003.1, ENST00000578061.5
      Conserved Domains (1) summary
      cd09486
      Location:40 → 92
      LIM_Eplin_like_1; a LIM domain subfamily on a group of proteins with unknown function

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060941.1 Alternate T2T-CHM13v2.0

      Range
      64566794..64571430 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054317424.1 → XP_054173399.1  LIM domain-containing protein 2 isoform X1

      UniProtKB/Swiss-Prot
      D3DU16, Q96S91, Q9BT23
      UniProtKB/TrEMBL
      A0A140VJN0, J3QQM5

    2. XM_054317422.1 → XP_054173397.1  LIM domain-containing protein 2 isoform X1

      UniProtKB/Swiss-Prot
      D3DU16, Q96S91, Q9BT23
      UniProtKB/TrEMBL
      A0A140VJN0, J3QQM5

    3. XM_054317423.1 → XP_054173398.1  LIM domain-containing protein 2 isoform X1

      UniProtKB/Swiss-Prot
      D3DU16, Q96S91, Q9BT23
      UniProtKB/TrEMBL
      A0A140VJN0, J3QQM5
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9BT23.1 GenPept UniProtKB/Swiss-Prot:Q9BT23

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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