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

Gene ID: 80774, updated on 5-May-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
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Genomic context

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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. 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.
  2. 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.
  3. 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
    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

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

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

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

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

Gene LinkOut

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