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C16orf90 chromosome 16 open reading frame 90 [ Homo sapiens (human) ]

Gene ID: 646174, updated on 17-Sep-2024

Summary

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Official Symbol
C16orf90provided by HGNC
Official Full Name
chromosome 16 open reading frame 90provided by HGNC
Primary source
HGNC:HGNC:34455
See related
Ensembl:ENSG00000215131 AllianceGenome:HGNC:34455
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
Restricted expression toward testis (RPKM 8.1) See more
Orthologs
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Genomic context

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See C16orf90 in Genome Data Viewer
Location:
16p13.3
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (3493484..3496652, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (3520742..3523910, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (3543484..3546652, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10322 Neighboring gene zinc finger protein 597 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7135 Neighboring gene N-alpha-acetyltransferase 60, NatF catalytic subunit Neighboring gene Neanderthal introgressed variant-containing enhancers experimental_43328 and experimental_43330 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_43334 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_43335 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_43338 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:3517275-3517812 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:3519547-3520264 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_43345 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_43346 Neighboring gene Sharpr-MPRA regulatory region 11363 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:3543048-3543257 Neighboring gene microRNA 6126 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10323 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10324 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:3551746-3552263 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:3552264-3552780 Neighboring gene ribosomal protein L18 pseudogene 12 Neighboring gene clusterin associated protein 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10325 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:3580705-3581205 Neighboring gene uncharacterized LOC101929732 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:3594423-3594923 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10326 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:3602829-3603548 Neighboring gene NLR family CARD domain containing 3 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:3603549-3604269 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:3604270-3604989 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:3611863-3612363 Neighboring gene uncharacterized LOC124903632

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. ΔNp63α Suppresses TGFB2 Expression and RHOA Activity to Drive Cell Proliferation in Squamous Cell Carcinomas. Abraham CG, et al. Cell Rep, 2018 Sep 18. PMID 30232004, Free PMC Article
  2. E3 ubiquitin ligase RNF123 targets lamin B1 and lamin-binding proteins. Khanna R, et al. FEBS J, 2018 Jun. PMID 29676528

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

Homology

General protein information

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Preferred Names
uncharacterized protein C16orf90

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_001080524.2 → NP_001073993.1  uncharacterized protein C16orf90 isoform a

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (a).
    Source sequence(s)
    AC004224
    Consensus CDS
    CCDS45397.1
    UniProtKB/Swiss-Prot
    A8MZG2
    UniProtKB/TrEMBL
    H0Y3R3
    Related
    ENSP00000401335.3, ENST00000437192.8
    Conserved Domains (1) summary
    pfam15486
    Location:16 → 173
    DUF4644; Domain of unknown function (DUF4644)

  2. NM_001353382.1 → NP_001340311.1  uncharacterized protein C16orf90 isoform b

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (b) has a shorter and distinct N-terminus compared to isoform a.
    Source sequence(s)
    AC004224
    UniProtKB/TrEMBL
    H0Y3R3
    Conserved Domains (1) summary
    pfam15486
    Location:9 → 166
    DUF4644; Domain of unknown function (DUF4644)

  3. NM_001353383.1 → NP_001340312.1  uncharacterized protein C16orf90 isoform c

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (c) is shorter at the N-terminus compared to isoform a. Variants 3, 4, and 5 all encode the same isoform (c).
    Source sequence(s)
    AC004224, HY025685
    Conserved Domains (1) summary
    pfam15486
    Location:1 → 86
    DUF4644; Domain of unknown function (DUF4644)

  4. NM_001353384.1 → NP_001340313.1  uncharacterized protein C16orf90 isoform c

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (c) is shorter at the N-terminus compared to isoform a. Variants 3, 4, and 5 all encode the same isoform (c).
    Source sequence(s)
    AC004224
    Conserved Domains (1) summary
    pfam15486
    Location:1 → 86
    DUF4644; Domain of unknown function (DUF4644)

  5. NM_001353385.2 → NP_001340314.1  uncharacterized protein C16orf90 isoform c

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (c) is shorter at the N-terminus compared to isoform a. Variants 3, 4, and 5 all encode the same isoform (c).
    Source sequence(s)
    AC004224
    Conserved Domains (1) summary
    pfam15486
    Location:1 → 86
    DUF4644; Domain of unknown function (DUF4644)

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_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    3493484..3496652 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024450393.1 → XP_024306161.1  uncharacterized protein C16orf90 isoform X1

    Conserved Domains (1) summary
    pfam15486
    Location:1 → 86
    DUF4644; Domain of unknown function (DUF4644)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    3520742..3523910 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054313690.1 → XP_054169665.1  uncharacterized protein C16orf90 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A8MZG2.3 GenPept UniProtKB/Swiss-Prot:A8MZG2

Gene LinkOut

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Molecular Biology Databases
Research Materials