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CHD9NB CHD9 neighbor [ Homo sapiens (human) ]

Gene ID: 105371267, updated on 13-Mar-2024

Summary

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Official Symbol
CHD9NBprovided by HGNC
Official Full Name
CHD9 neighborprovided by HGNC
Primary source
HGNC:HGNC:53436
See related
Ensembl:ENSG00000277639
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
Also known as
PR-lncRNA-1
Expression
Low expression observed in reference dataset See more
Orthologs
all
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Genomic context

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See CHD9NB in Genome Data Viewer
Location:
16q12.2
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (53035690..53052897, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (58833426..58850614, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (53069602..53086809, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene KIAA1191 pseudogene Neighboring gene MTCH2 pseudogene 4 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:53078114-53078979 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:53089197-53089728 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10831 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:53094537-53094763 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10832 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10833 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10834 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10835 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10836 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr16:53119716-53120520 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:53125251-53125936 Neighboring gene chromodomain helicase DNA binding protein 9 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr16:53132870-53134069 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10840 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10841 Neighboring gene MPRA-validated peak2596 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7494 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7495 Neighboring gene Sharpr-MPRA regulatory region 10980 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr16:53241747-53242336 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr16:53242337-53242924 Neighboring gene thyroid hormone receptor interactor 13 pseudogene Neighboring gene thyroid hormone receptor interactor 13 pseudogene Neighboring gene small nucleolar RNA U13

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. Genome-wide analysis of the human p53 transcriptional network unveils a lncRNA tumour suppressor signature. Sánchez Y, et al. Nat Commun, 2014 Dec 19. PMID 25524025, Free PMC Article
  2. Sam68 functions as a transcriptional coactivator of the p53 tumor suppressor. Li N, et al. Nucleic Acids Res, 2016 Oct 14. PMID 27365047, Free PMC Article
  3. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548

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)

Genotypes

General gene information

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Homology

General protein information

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Preferred Names
CHD9 neighbor protein
Names
p53-regulated lncRNA 1

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_001396020.1 → NP_001382949.1  CHD9 neighbor protein

    Status: VALIDATED

    Source sequence(s)
    AC007906
    Consensus CDS
    CCDS92160.1
    UniProtKB/Swiss-Prot
    A0A1B0GV96
    Related
    ENSP00000490424.1, ENST00000619363.3

RNA

  1. NR_136518.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    CR736442
    Related
    ENST00000562178.1

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_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    53035690..53052897 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    58833426..58850614 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NR_147075.1: Suppressed sequence

    Description
    NR_147075.1: This RefSeq was removed because it is now thought that this gene does encode a protein.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A0A1B0GV96.1 GenPept UniProtKB/Swiss-Prot:A0A1B0GV96

Gene LinkOut

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

Molecular Biology Databases
Research Materials