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CCDC142 coiled-coil domain containing 142 [ Homo sapiens (human) ]

Gene ID: 84865, updated on 5-Mar-2024

Summary

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Official Symbol
CCDC142provided by HGNC
Official Full Name
coiled-coil domain containing 142provided by HGNC
Primary source
HGNC:HGNC:25889
See related
Ensembl:ENSG00000135637 AllianceGenome:HGNC:25889
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
Expression
Ubiquitous expression in testis (RPKM 2.1), duodenum (RPKM 2.1) and 25 other tissues See more
Orthologs
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Genomic context

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See CCDC142 in Genome Data Viewer
Location:
2p13.1
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (74472832..74482998, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (74481399..74491562, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (74699959..74710125, complement)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11664 Neighboring gene mannosyl-oligosaccharide glucosidase Neighboring gene Sharpr-MPRA regulatory region 2309 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16060 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16061 Neighboring gene mitochondrial ribosomal protein L53 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16062 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16063 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16064 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16065 Neighboring gene tetratricopeptide repeat domain 31 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16066 Neighboring gene ladybird homeobox 2 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:74729628-74730252 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:74730253-74730878 Neighboring gene LBX2 antisense RNA 1

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. [Novel bidirectional promoter from human genome]. Orekhova AS, et al. Mol Biol (Mosk), 2011 May-Jun. PMID 21790010
  2. Signal sequence and keyword trap in silico for selection of full-length human cDNAs encoding secretion or membrane proteins from oligo-capped cDNA libraries. Otsuki T, et al. DNA Res, 2005. PMID 16303743
  3. SUMOylation of DDX39A Alters Binding and Export of Antiviral Transcripts to Control Innate Immunity. Shi P, et al. J Immunol, 2020 Jul 1. PMID 32393512
  4. SARS-CoV-2-host proteome interactions for antiviral drug discovery. Liu X, et al. Mol Syst Biol, 2021 Nov. PMID 34709727, Free PMC Article
  5. VIRMA mediates preferential m(6)A mRNA methylation in 3'UTR and near stop codon and associates with alternative polyadenylation. Yue Y, et al. Cell Discov, 2018. PMID 29507755, Free PMC Article

See all (10) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

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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Markers

Potential readthrough

Included gene: MRPL53

Homology

Clone Names

  • FLJ14397, FLJ90728

General protein information

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Preferred Names
coiled-coil domain-containing protein 142

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_001365575.2 → NP_001352504.1  coiled-coil domain-containing protein 142 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC005041, AK027303, AK075543, BC117269, DB036151
    Consensus CDS
    CCDS92784.1
    UniProtKB/Swiss-Prot
    B7ZKV5, Q17RM4, Q8NBJ3, Q8NBV2, Q96KA7
    Related
    ENSP00000377537.3, ENST00000393965.8
    Conserved Domains (1) summary
    pfam14923
    Location:308 → 726
    CCDC142; Coiled-coil protein 142

  2. NM_032779.4 → NP_116168.3  coiled-coil domain-containing protein 142 isoform 2

    See identical proteins and their annotated locations for NP_116168.3

    Status: VALIDATED

    Source sequence(s)
    AC005041, AK075543, BC117269
    Consensus CDS
    CCDS1945.1
    UniProtKB/Swiss-Prot
    Q17RM4
    Related
    ENSP00000290418.4, ENST00000290418.4
    Conserved Domains (1) summary
    pfam14923
    Location:308 → 719
    CCDC142; Coiled-coil protein 142

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_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    74472832..74482998 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    74481399..74491562 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q17RM4.1 GenPept UniProtKB/Swiss-Prot:Q17RM4

Gene LinkOut

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

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