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    ANKRD13C-DT ANKRD13C divergent transcript [ Homo sapiens (human) ]

    Gene ID: 11147, updated on 22-Oct-2024

    Summary

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    Official Symbol
    ANKRD13C-DTprovided by HGNC
    Official Full Name
    ANKRD13C divergent transcriptprovided by HGNC
    Primary source
    HGNC:HGNC:4906
    See related
    Ensembl:ENSG00000197568 MIM:604372; AllianceGenome:HGNC:4906
    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
    HHLA3
    Expression
    Ubiquitous expression in brain (RPKM 3.4), kidney (RPKM 3.3) and 25 other tissues See more
    Orthologs
    all
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    Genomic context

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    See ANKRD13C-DT in Genome Data Viewer
    Location:
    1p31.1
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (70354811..70368023)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (70233320..70246532)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (70820494..70833706)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1187 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:70686957-70687502 Neighboring gene serine and arginine rich splicing factor 11 Neighboring gene MPRA-validated peak281 silencer Neighboring gene ankyrin repeat domain 13C Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr1:70818812-70820011 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:70820190-70821107 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1193 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:70826052-70826245 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:70833556-70834402 Neighboring gene long intergenic non-protein coding RNA 3102 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:70837138-70838020 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:70838021-70838902 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1194 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 989 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1195 Neighboring gene cystathionine gamma-lyase Neighboring gene uncharacterized LOC105378793 Neighboring gene MPRA-validated peak283 silencer Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:70925492-70926298

    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 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. Endogenous retroviruses provide the primary polyadenylation signal for two new human genes (HHLA2 and HHLA3). Mager DL, et al. Genomics, 1999 Aug 1. PMID 10444326
    2. Cullin 1 (CUL1) Promotes Primary Ciliogenesis through the Induction of Ubiquitin-Proteasome-Dependent Dvl2 Degradation. Kim SO, et al. Int J Mol Sci, 2021 Jul 15. PMID 34299191, Free PMC Article
    3. The DNA sequence and biological annotation of human chromosome 1. Gregory SG, et al. Nature, 2006 May 18. PMID 16710414
    4. Towards a proteome-scale map of the human protein-protein interaction network. Rual JF, et al. Nature, 2005 Oct 20. PMID 16189514
    5. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. Lamesch P, et al. Genomics, 2007 Mar. PMID 17207965, Free PMC Article

    See all (9) 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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    Homology

    Other Names

    • HERV-H LTR-associating 3
    • HERV-H LTR-associating protein 3
    • human endogenous retrovirus-H long terminal repeat-associating 3
    • human endogenous retrovirus-H long terminal repeat-associating protein 3

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 

    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_027404.2 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AF126164, BI868263, BQ009559
      Related
      ENST00000463058.8

    2. NR_168346.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL158839
      Related
      ENST00000370940.9

    3. NR_168347.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL158839
      Related
      ENST00000359875.11

    4. NR_168348.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL158839
      Related
      ENST00000361764.10

    5. NR_168349.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL158839
      Related
      ENST00000486110.3

    6. NR_168350.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL158839
      Related
      ENST00000820271.1

    7. NR_168351.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL158839
      Related
      ENST00000689607.3

    8. NR_168352.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL158839
      Related
      ENST00000820265.1

    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_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      70354811..70368023
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      70233320..70246532
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001031693.3: Suppressed sequence

      Description
      NM_001031693.3: This RefSeq was removed because it is now thought that this gene does not encode a protein.

    2. NM_001036645.2: Suppressed sequence

      Description
      NM_001036645.2: This RefSeq was removed because it is now thought that this gene does not encode a protein.

    3. NM_001036646.2: Suppressed sequence

      Description
      NM_001036646.2: This RefSeq was removed because it is now thought that this gene does not encode a protein.

    4. NM_007071.2: Suppressed sequence

      Description
      NM_007071.2: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9XRX5.3 GenPept UniProtKB/Swiss-Prot:Q9XRX5

    Gene LinkOut

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

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