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

Gene ID: 11147, updated on 5-Mar-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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Location:
1p31.1
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (70354811..70368023)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (70233320..70246532)
105.20220307 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
  • 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
    ENST00000463058.7

  2. NR_168346.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL158839
    Related
    ENST00000370940.8

  3. NR_168347.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL158839
    Related
    ENST00000359875.10

  4. NR_168348.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL158839
    Related
    ENST00000361764.9

  5. NR_168349.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL158839
    Related
    ENST00000486110.2

  6. NR_168350.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL158839

  7. NR_168351.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL158839
    Related
    ENST00000689607.2

  8. NR_168352.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL158839

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_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

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