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PDCD6P1 PDCD6 pseudogene 1 [ Homo sapiens (human) ]

Gene ID: 728613, updated on 10-Oct-2023

Summary

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Official Symbol
PDCD6P1provided by HGNC
Official Full Name
PDCD6 pseudogene 1provided by HGNC
Primary source
HGNC:HGNC:55763
See related
AllianceGenome:HGNC:55763
Gene type
pseudo
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Expression
Ubiquitous expression in testis (RPKM 4.0), thyroid (RPKM 4.0) and 25 other tissues See more
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Genomic context

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Location:
5p15.33
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (1597557..1634005, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (1511560..1548358, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (1597672..1634120, complement)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107986397 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1550004-1550504 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1565824-1566805 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1575932-1576432 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1576433-1576933 Neighboring gene SDHA pseudogene 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1592875-1593376 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1593377-1593876 Neighboring gene Sharpr-MPRA regulatory region 3968 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1603671-1604172 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1607451-1607950 Neighboring gene serine/threonine-protein phosphatase 4 regulatory subunit 2-like Neighboring gene uncharacterized LOC112267946 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15886 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1642325-1642877 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1642878-1643429 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1643470-1644132 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15887 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1701759-1702392 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1703601-1704100 Neighboring gene uncharacterized LOC105374614 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1707249-1707750 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1707751-1708250 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:1708852-1709007 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1708971-1709534 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1709535-1710099 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1710100-1710663 Neighboring gene microRNA 4277 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1745447-1745946 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1751136-1751775 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1768734-1769442 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1769443-1770149 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1771839-1772338 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22308 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22309 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22310 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22311 Neighboring gene uncharacterized LOC101929003

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 association study identifies multiple susceptibility loci for pancreatic cancer. Wolpin BM, et al. Nat Genet, 2014 Sep. PMID 25086665, Free PMC Article
  2. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study identifies multiple susceptibility loci for pancreatic cancer.
EBI GWAS Catalog

Variation

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See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

General gene information

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Markers

Other Names

  • programmed cell death 6 pseudogene

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_003713.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AI028226, BC045555, DA140572, DA383480

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_000005.10 Reference GRCh38.p14 Primary Assembly

    Range
    1597557..1634005 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    1511560..1548358 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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