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C5orf58 chromosome 5 open reading frame 58 [ Homo sapiens (human) ]

Gene ID: 133874, updated on 5-Mar-2024

Summary

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Official Symbol
C5orf58provided by HGNC
Official Full Name
chromosome 5 open reading frame 58provided by HGNC
Primary source
HGNC:HGNC:37272
See related
Ensembl:ENSG00000234511 AllianceGenome:HGNC:37272
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
Biased expression in testis (RPKM 12.9), bone marrow (RPKM 2.8) and 5 other tissues See more
Orthologs
all
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Genomic context

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Location:
5q35.1
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (170232985..170252570)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (170771839..170791430)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (169659989..169679574)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene keratin 18 pseudogene 41 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:169581531-169582061 Neighboring gene long intergenic non-protein coding RNA 1187 Neighboring gene Sharpr-MPRA regulatory region 15284 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr5:169646378-169647577 Neighboring gene lymphocyte cytosolic protein 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16604 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23604 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16605 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23605 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr5:169730050-169731249 Neighboring gene uncharacterized LOC100128059 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23606 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23607 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr5:169757700-169758899 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:169759699-169760548 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:169760549-169761396 Neighboring gene long intergenic non-protein coding RNA 1366

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. Genome-wide association study identifies three novel susceptibility loci for severe Acne vulgaris. Navarini AA, et al. Nat Commun, 2014 Jun 13. PMID 24927181
  2. Histone Interaction Landscapes Visualized by Crosslinking Mass Spectrometry in Intact Cell Nuclei. Fasci D, et al. Mol Cell Proteomics, 2018 Oct. PMID 30021884, Free PMC Article
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study identifies three novel susceptibility loci for severe Acne vulgaris.
EBI GWAS Catalog

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

  • MGC42229

General protein information

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Preferred Names
putative uncharacterized protein C5orf58

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_001102609.3 → NP_001096079.2  putative uncharacterized protein C5orf58

    Status: VALIDATED

    Source sequence(s)
    AC008660, AC034199
    Consensus CDS
    CCDS47338.1
    UniProtKB/Swiss-Prot
    C9J3I9
    Related
    ENSP00000490013.2, ENST00000593851.5

  2. NM_001305393.2 → NP_001292322.2  putative uncharacterized protein C5orf58

    Status: VALIDATED

    Source sequence(s)
    AC008660, AC034199
    Consensus CDS
    CCDS47338.1
    UniProtKB/Swiss-Prot
    C9J3I9

  3. NM_001305394.2 → NP_001292323.2  putative uncharacterized protein C5orf58

    Status: VALIDATED

    Source sequence(s)
    AC008660, AC034199
    Consensus CDS
    CCDS47338.1
    UniProtKB/Swiss-Prot
    C9J3I9

RNA

  1. NR_131091.3 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC008660, AC034199
    Related
    ENST00000524171.5

  2. NR_131092.3 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC008660, AC034199

  3. NR_161261.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC008660, AC034199

  4. NR_161262.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC008660, AC034199

  5. NR_161263.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC008660, AC034199

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_000005.10 Reference GRCh38.p14 Primary Assembly

    Range
    170232985..170252570
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047416711.1 → XP_047272667.1  putative uncharacterized protein C5orf58 isoform X1

  2. XM_017009032.2 → XP_016864521.1  putative uncharacterized protein C5orf58 isoform X1

    UniProtKB/Swiss-Prot
    C9J3I9

  3. XM_047416712.1 → XP_047272668.1  putative uncharacterized protein C5orf58 isoform X2

    UniProtKB/Swiss-Prot
    C9J3I9

  4. XM_017009033.2 → XP_016864522.1  putative uncharacterized protein C5orf58 isoform X1

    UniProtKB/Swiss-Prot
    C9J3I9

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    170771839..170791430
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054351607.1 → XP_054207582.1  putative uncharacterized protein C5orf58 isoform X1

  2. XM_054351609.1 → XP_054207584.1  putative uncharacterized protein C5orf58 isoform X2

    UniProtKB/Swiss-Prot
    C9J3I9

  3. XM_054351606.1 → XP_054207581.1  putative uncharacterized protein C5orf58 isoform X1

  4. XM_054351608.1 → XP_054207583.1  putative uncharacterized protein C5orf58 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
C9J3I9.2 GenPept UniProtKB/Swiss-Prot:C9J3I9

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