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C18orf21 chromosome 18 open reading frame 21 [ Homo sapiens (human) ]

Gene ID: 83608, updated on 13-Mar-2020

Summary

Official Symbol
C18orf21provided by HGNC
Official Full Name
chromosome 18 open reading frame 21provided by HGNC
Primary source
HGNC:HGNC:28802
See related
Ensembl:ENSG00000141428
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
Also known as
XTP13; HsT3108; PNAS-124; PNAS-131
Expression
Ubiquitous expression in testis (RPKM 16.8), bone marrow (RPKM 16.7) and 25 other tissues See more
Orthologs

Genomic context

See C18orf21 in Genome Data Viewer
Location:
18q12.2
Exon count:
4
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 18 NC_000018.10 (35971878..35979287)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 18 NC_000018.9 (33552588..33559250)

Chromosome 18 - NC_000018.10Genomic Context describing neighboring genes Neighboring gene microRNA 187 Neighboring gene microRNA 3929 Neighboring gene uncharacterized LOC105372066 Neighboring gene Sharpr-MPRA regulatory region 2053 Neighboring gene regulation of nuclear pre-mRNA domain containing 1A Neighboring gene solute carrier family 39 member 6

Genomic regions, transcripts, and products

Expression

  • 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

Phenotypes

NHGRI GWAS Catalog

Description
Genome wide analysis of drug-induced torsades de pointes: lack of common variants with large effect sizes.
NHGRI GWA Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of chromosome 18 open reading frame 21 (C18orf21) by siRNA enhances the early stages of HIV-1 replication in HeLa-CD4 cells infected with viral pseudotypes HIV89.6R and HIV8.2N PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC131953

General protein information

Preferred Names
UPF0711 protein C18orf21
Names
HBV X-transactivated gene 13 protein
HBV X-transactivated protein 13
HBV XAg-transactivated protein 13

NCBI Reference Sequences (RefSeq)

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_001201474.1NP_001188403.1  UPF0711 protein C18orf21 isoform b

    See identical proteins and their annotated locations for NP_001188403.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (b) is shorter at the N-terminus compared to isoform a. Variants 2 and 3 both encode the same isoform (b).
    Source sequence(s)
    AA648431, AW967900, BC108730, W84353
    Consensus CDS
    CCDS56064.1
    UniProtKB/Swiss-Prot
    Q32NC0
    UniProtKB/TrEMBL
    W4VSQ2
    Related
    ENSP00000480486.1, ENST00000610527.4
    Conserved Domains (1) summary
    pfam15719
    Location:1126
    DUF4674; Domain of unknown function (DUF4674)
  2. NM_001201475.1NP_001188404.1  UPF0711 protein C18orf21 isoform b

    See identical proteins and their annotated locations for NP_001188404.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (b) is shorter at the N-terminus compared to isoform a. Variants 2 and 3 both encode the same isoform (b).
    Source sequence(s)
    AA648431, BC025950, BC108730, W84353
    Consensus CDS
    CCDS56064.1
    UniProtKB/Swiss-Prot
    Q32NC0
    UniProtKB/TrEMBL
    W4VSQ2
    Related
    ENSP00000329492.5, ENST00000333234.5
    Conserved Domains (1) summary
    pfam15719
    Location:1126
    DUF4674; Domain of unknown function (DUF4674)
  3. NM_001201476.1NP_001188405.1  UPF0711 protein C18orf21 isoform c

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks an alternate exon compared to variant 1, that causes a frameshift. The resulting isoform (c) has a shorter and distinct C-terminus compared to isoform a.
    Source sequence(s)
    AA648431, DN991579, W84353
    Consensus CDS
    CCDS74212.1
    UniProtKB/TrEMBL
    A0A087X0E7
    Related
    ENSP00000483334.1, ENST00000618334.1
    Conserved Domains (1) summary
    pfam15719
    Location:27100
    DUF4674; Domain of unknown function (DUF4674)
  4. NM_031446.5NP_113634.3  UPF0711 protein C18orf21 isoform a

    See identical proteins and their annotated locations for NP_113634.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (a).
    Source sequence(s)
    AA648431, BC108730
    Consensus CDS
    CCDS11916.2
    UniProtKB/Swiss-Prot
    Q32NC0
    Related
    ENSP00000465517.1, ENST00000592875.6
    Conserved Domains (1) summary
    pfam15719
    Location:27214
    DUF4674; Domain of unknown function (DUF4674)

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000018.10 Reference GRCh38.p13 Primary Assembly

    Range
    35971878..35979287
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005258364.5XP_005258421.1  UPF0711 protein C18orf21 isoform X1

    Conserved Domains (1) summary
    pfam15719
    Location:33220
    DUF4674; Domain of unknown function (DUF4674)
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