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KCNK4-CATSPERZ KCNK4-CATSPERZ readthrough (NMD candidate) [ Homo sapiens (human) ]

Gene ID: 106780802, updated on 28-Oct-2024

Summary

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Official Symbol
KCNK4-CATSPERZprovided by HGNC
Official Full Name
KCNK4-CATSPERZ readthrough (NMD candidate)provided by HGNC
Primary source
HGNC:HGNC:56753
See related
Ensembl:ENSG00000257069 AllianceGenome:HGNC:56753
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
KCNK4-TEX40
Summary
This locus represents naturally occurring readthrough transcription between the neighboring KCNK4 (potassium channel subfamily K member 4) and the downstream TEX40 (testis expressed 40) chromosome 11. The readthrough transcript is a candidate for nonsense-mediated mRNA decay (NMD), and is unlikely to produce a protein product. [provided by RefSeq, Nov 2015]
Expression
Restricted expression toward testis (RPKM 50.3) See more
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Genomic context

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See KCNK4-CATSPERZ in Genome Data Viewer
Location:
11q13.1
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (64291722..64304769)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (64281686..64294736)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (64059194..64072241)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:64019089-64019734 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:64019735-64020381 Neighboring gene phospholipase C beta 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4892 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4893 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3473 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4894 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:64038093-64038658 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4895 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4896 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:64042574-64043234 Neighboring gene G protein-coupled receptor 137 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:64043895-64044554 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:64046081-64046582 Neighboring gene BCL2 associated agonist of cell death Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3474 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3475 Neighboring gene potassium two pore domain channel subfamily K member 4 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:64066730-64067724 Neighboring gene catsper channel auxiliary subunit zeta Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3476 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4897 Neighboring gene estrogen related receptor alpha Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:64083535-64084050 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4898 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3477 Neighboring gene tRNA methyltransferase activator subunit 11-2 Neighboring gene peroxiredoxin 5

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. Cloning of two transcripts, HKT4.1a and HKT4.1b, from the human two-pore K+ channel gene KCNK4. Chromosomal localization, tissue distribution and functional expression. Ozaita A, et al. Brain Res Mol Brain Res, 2002 Jun 15. PMID 12191490

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

Other Names

  • KCNK4-TEX40 readthrough

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_133662.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AF247042, AP001453
    Related
    ENST00000539086.5

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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    64291722..64304769
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    64281686..64294736
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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