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C16orf87 chromosome 16 open reading frame 87 [ Homo sapiens (human) ]

Gene ID: 388272, updated on 5-Mar-2024

Summary

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Official Symbol
C16orf87provided by HGNC
Official Full Name
chromosome 16 open reading frame 87provided by HGNC
Primary source
HGNC:HGNC:33754
See related
Ensembl:ENSG00000155330 AllianceGenome:HGNC:33754
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
Broad expression in testis (RPKM 20.7), bone marrow (RPKM 11.7) and 23 other tissues See more
Orthologs
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Genomic context

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See C16orf87 in Genome Data Viewer
Location:
16q11.2
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (46796603..46831180, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (52593496..52628075, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (46830515..46865092, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene myosin light chain kinase 3 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:46760810-46761360 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:46769513-46770212 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10773 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:46781193-46782042 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:46790891-46791426 Neighboring gene NANOG hESC enhancer GRCh37_chr16:46802782-46803317 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:46811535-46812050 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:46812051-46812566 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10774 Neighboring gene NFE2 like bZIP transcription factor 3 pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7434 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10775 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10776 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10777 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7435 Neighboring gene MPRA-validated peak2574 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:46877721-46878246 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:46878247-46878770 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10778 Neighboring gene Sharpr-MPRA regulatory region 14543 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10779 Neighboring gene creatine kinase B pseudogene 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:46903238-46903844 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:46903845-46904450 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:46917671-46918263 Neighboring gene small nucleolar RNA, C/D box 148 Neighboring gene glutamic--pyruvic transaminase 2

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. Stabilization of the methyl-CpG binding protein ZBTB38 by the deubiquitinase USP9X limits the occurrence and toxicity of oxidative stress in human cells. Miotto B, et al. Nucleic Acids Res, 2018 May 18. PMID 29490077, Free PMC Article
  2. Proximity-dependent Mapping of the Androgen Receptor Identifies Kruppel-like Factor 4 as a Functional Partner. Vélot L, et al. Mol Cell Proteomics, 2021. PMID 33640491, Free PMC Article
  3. The functional interactome landscape of the human histone deacetylase family. Joshi P, et al. Mol Syst Biol, 2013. PMID 23752268, Free PMC Article
  4. H4K20me0 recognition by BRCA1-BARD1 directs homologous recombination to sister chromatids. Nakamura K, et al. Nat Cell Biol, 2019 Mar. PMID 30804502, Free PMC Article
  5. Ubiquitin-mediated proteolysis of HuR by heat shock. Abdelmohsen K, et al. EMBO J, 2009 May 6. PMID 19322201, Free PMC Article

See all (17) citations in PubMed

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)

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

Homology

Clone Names

  • MGC62018

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 

General protein information

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Preferred Names
UPF0547 protein C16orf87

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_001001436.4 → NP_001001436.1  UPF0547 protein C16orf87 isoform 1

    See identical proteins and their annotated locations for NP_001001436.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AC007225, BC056676, BX647945
    Consensus CDS
    CCDS10724.1
    UniProtKB/Swiss-Prot
    Q63HN9, Q6PH81
    Related
    ENSP00000285697.4, ENST00000285697.9
    Conserved Domains (1) summary
    pfam10571
    Location:14 → 38
    UPF0547; Uncharacterized protein family UPF0547

  2. NM_001348660.2 → NP_001335589.1  UPF0547 protein C16orf87 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AC007225
    Consensus CDS
    CCDS86522.1
    UniProtKB/Swiss-Prot
    Q6PH81
    Related
    ENSP00000378285.2, ENST00000394806.6
    Conserved Domains (1) summary
    pfam10571
    Location:14 → 38
    UPF0547; Uncharacterized protein family UPF0547

  3. NM_001348661.2 → NP_001335590.1  UPF0547 protein C16orf87 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate exon and contains another alternate exon compared to variant 1. The resulting isoform (3) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AC007225
    Conserved Domains (1) summary
    pfam10571
    Location:14 → 38
    UPF0547; Uncharacterized protein family UPF0547

RNA

  1. NR_145834.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC007225, BX647945, HY180978

  2. NR_145835.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC007225

  3. NR_145836.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC007225, BX647945, DB460878

  4. NR_145837.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC007225

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
    46796603..46831180 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    52593496..52628075 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6PH81.1 GenPept UniProtKB/Swiss-Prot:Q6PH81

Gene LinkOut

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