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C15orf39 chromosome 15 open reading frame 39 [ Homo sapiens (human) ]

Gene ID: 56905, updated on 27-Nov-2024

Summary

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Official Symbol
C15orf39provided by HGNC
Official Full Name
chromosome 15 open reading frame 39provided by HGNC
Primary source
HGNC:HGNC:24497
See related
Ensembl:ENSG00000167173 AllianceGenome:HGNC:24497
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
Summary
Located in cytosol. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in testis (RPKM 35.8), bone marrow (RPKM 21.8) and 23 other tissues See more
Orthologs
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Genomic context

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See C15orf39 in Genome Data Viewer
Location:
15q24.2
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (75198889..75212169)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (73068928..73082210)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (75494223..75504510)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:75480455-75480956 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:75480957-75481456 Neighboring gene ribosomal protein L36a pseudogene 45 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:75484212-75484914 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:75487637-75488181 Neighboring gene uncharacterized LOC107984772 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9839 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9840 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9841 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:75493826-75494548 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6665 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9842 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9843 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9844 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9845 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9846 Neighboring gene taste receptor cell gene 1, pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:75529495-75530112 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:75530113-75530729 Neighboring gene NIFK pseudogene 4

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. Interrogating Kinase-Substrate Relationships with Proximity Labeling and Phosphorylation Enrichment. Zhang T, et al. J Proteome Res, 2022 Feb 4. PMID 35044772, Free PMC Article
  2. Human C15orf39 Inhibits Inflammatory Response via PRMT2 in Human Microglial HMC3 Cell Line. Zhang M, et al. Int J Mol Sci, 2024 May 30. PMID 38892217, Free PMC Article
  3. Large-scale cDNA transfection screening for genes related to cancer development and progression. Wan D, et al. Proc Natl Acad Sci U S A, 2004 Nov 2. PMID 15498874, Free PMC Article
  4. Regulation of ETAA1-mediated ATR activation couples DNA replication fidelity and genome stability. Achuthankutty D, et al. J Cell Biol, 2019 Dec 2. PMID 31615875, Free PMC Article
  5. The Eyes Absent family members EYA4 and EYA1 promote PLK1 activation and successful mitosis through tyrosine dephosphorylation. Nelson CB, et al. Nat Commun, 2024 Feb 15. PMID 38360978, Free PMC Article

See all (43) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Human C15orf39 Inhibits Inflammatory Response via PRMT2 in Human Microglial HMC3 Cell Line.
    Title: Human C15orf39 Inhibits Inflammatory Response via PRMT2 in Human Microglial HMC3 Cell Line.
Submit: New GeneRIF Correction

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)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ46337, MGC117209, DKFZp434H132

Gene Ontology Provided by GOA

Component Evidence Code Pubs
located_in cytosol IDA
Inferred from Direct Assay
more info
  

General protein information

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Preferred Names
uncharacterized protein C15orf39

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_015492.5 → NP_056307.3  uncharacterized protein C15orf39

    Status: VALIDATED

    Source sequence(s)
    AC113208
    Consensus CDS
    CCDS10276.1
    UniProtKB/Swiss-Prot
    B3KWI3, C9J888, Q6ZRI6, Q71JB1, Q7L3S0, Q8N3F2, Q96FB6, Q9NTU5
    Related
    ENSP00000378438.4, ENST00000394987.5
    Conserved Domains (1) summary
    cl26464
    Location:164 → 563
    Atrophin-1; Atrophin-1 family

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_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    75198889..75212169
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047432864.1 → XP_047288820.1  uncharacterized protein C15orf39 isoform X1

    UniProtKB/Swiss-Prot
    B3KWI3, C9J888, Q6ZRI6, Q71JB1, Q7L3S0, Q8N3F2, Q96FB6, Q9NTU5
    Related
    ENSP00000353854.2, ENST00000360639.6

  2. XM_047432865.1 → XP_047288821.1  uncharacterized protein C15orf39 isoform X2

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    73068928..73082210
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054378458.1 → XP_054234433.1  uncharacterized protein C15orf39 isoform X1

  2. XM_054378460.1 → XP_054234435.1  uncharacterized protein C15orf39 isoform X2

  3. XM_054378459.1 → XP_054234434.1  uncharacterized protein C15orf39 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6ZRI6.3 GenPept UniProtKB/Swiss-Prot:Q6ZRI6

Gene LinkOut

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

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