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    WAKMAR2 wound and keratinocyte migration associated lncRNA 2 [ Homo sapiens (human) ]

    Gene ID: 100130476, updated on 10-Dec-2024

    Summary

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    Official Symbol
    WAKMAR2provided by HGNC
    Official Full Name
    wound and keratinocyte migration associated lncRNA 2provided by HGNC
    Primary source
    HGNC:HGNC:53754
    See related
    MIM:618508; AllianceGenome:HGNC:53754
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    lnc-TNFAIP3
    Expression
    Broad expression in skin (RPKM 4.7), bone marrow (RPKM 3.3) and 16 other tissues See more
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    Genomic context

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    See WAKMAR2 in Genome Data Viewer
    Location:
    6q23.3
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (137823669..137868233, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (139012092..139056654, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (138144806..138189370, complement)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17586 Neighboring gene ReSE screen-validated silencer GRCh37_chr6:138039958-138040164 Neighboring gene PTPN11 pseudogene 3 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17587 Neighboring gene long intergenic non-protein coding RNA 2539 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17588 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25145 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25146 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25147 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25148 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25149 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25150 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25151 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25152 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17589 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25153 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17590 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17591 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25154 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr6:138196296-138197495 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:138200115-138200697 Neighboring gene TNF alpha induced protein 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25155 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25156 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr6:138246817-138248016 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25157 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17592 Neighboring gene NANOG hESC enhancer GRCh37_chr6:138276502-138277003 Neighboring gene long intergenic non-protein coding RNA 2865 Neighboring gene suppressor of inflammatory macrophage apoptosis lncRNA Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25158 Neighboring gene ribosomal protein SA pseudogene 42

    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. WAKMAR2, a Long Noncoding RNA Downregulated in Human Chronic Wounds, Modulates Keratinocyte Motility and Production of Inflammatory Chemokines. Herter EK, et al. J Invest Dermatol, 2019 Jun. PMID 30594489
    2. Methylation-mediated downregulation of long noncoding RNA LOC100130476 in gastric cardia adenocarcinoma. Guo W, et al. Clin Exp Metastasis, 2016 Jun. PMID 27189370
    3. LncRNA-WAKMAR2 regulates expression of CLDN1 to affect skin barrier through recruiting c-Fos. Tu Y, et al. Contact Dermatitis, 2023 Mar. PMID 36461623
    4. The long noncoding RNA ROCKI regulates inflammatory gene expression. Zhang Q, et al. EMBO J, 2019 Apr 15. PMID 30918008, Free PMC Article
    5. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. Bailey SD, et al. Diabetes Care, 2010 Oct. PMID 20628086, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. LncRNA-WAKMAR2 regulates expression of CLDN1 to affect skin barrier through recruiting c-Fos.
      Title: LncRNA-WAKMAR2 regulates expression of CLDN1 to affect skin barrier through recruiting c-Fos.
    2. Study data suggest that WAKMAR2 is an important regulator of skin wound healing through production of inflammatory chemokines by keratinocytes, and cell migration enhancing and its deficiency may contribute to the pathogenesis of chronic wounds.
      Title: WAKMAR2, a Long Noncoding RNA Downregulated in Human Chronic Wounds, Modulates Keratinocyte Motility and Production of Inflammatory Chemokines.
    3. aberrant methylation of LOC100130476 in peripheral white blood cells andgastric cardia adenocarcinoma ( GCA) tissues may be used as a potential valuable biomarker in GCA diagnosis and prognosis
      Title: Methylation-mediated downregulation of long noncoding RNA LOC100130476 in gastric cardia adenocarcinoma.
    4. Observational study of gene-disease association, gene-environment interaction, and pharmacogenomic / toxicogenomic. (HuGE Navigator)
      Title: Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study.
    5. Observational study of gene-disease association. (HuGE Navigator)
      Title: Gene-centric association signals for lipids and apolipoproteins identified via the HumanCVD BeadChip.
    Submit: New GeneRIF Correction

    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)

    General gene information

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    Markers

    Clone Names

    • FLJ42179

    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.

    RNA

    1. NR_049793.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AK124173, AL357060

    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_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      137823669..137868233 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      139012092..139056654 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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