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C7orf50 chromosome 7 open reading frame 50 [ Homo sapiens (human) ]

Gene ID: 84310, updated on 3-Nov-2024

Summary

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Official Symbol
C7orf50provided by HGNC
Official Full Name
chromosome 7 open reading frame 50provided by HGNC
Primary source
HGNC:HGNC:22421
See related
Ensembl:ENSG00000146540 AllianceGenome:HGNC:22421
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
YCR016W; Cholesin
Summary
Enables hormone activity. Involved in negative regulation of cholesterol biosynthetic process. Is active in extracellular space. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in kidney (RPKM 5.2), brain (RPKM 3.9) and 25 other tissues See more
Orthologs
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Genomic context

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See C7orf50 in Genome Data Viewer
Location:
7p22.3
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (977964..1138257, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (1082961..1240814, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (1017600..1177893, complement)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene ArfGAP with dual PH domains 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17830 Neighboring gene uncharacterized LOC124901569 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:994600-995209 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17832 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:1002516-1003103 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25482 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:1006706-1007206 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:1007207-1007707 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:1014408-1015290 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:1015291-1016171 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17835 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:1028403-1029003 Neighboring gene cytochrome c oxidase assembly factor COX19 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17836 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25484 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:1036874-1037414 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:1038871-1039460 Neighboring gene uncharacterized LOC124901570 Neighboring gene cytochrome P450 family 2 subfamily W member 1 Neighboring gene nonconserved acetylation island sequence 100 enhancer Neighboring gene hESC enhancers GRCh37_chr7:1067181-1067915 and GRCh37_chr7:1067916-1068649 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17839 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17840 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:1075522-1076044 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:1076045-1076566 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:1080290-1080797 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:1081305-1081812 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:1083301-1083856 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17841 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17842 Neighboring gene microRNA 339 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:1091635-1092615 Neighboring gene H3K27ac-H3K4me1 hESC enhancers GRCh37_chr7:1095105-1095810 and GRCh37_chr7:1095811-1096516 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25486 Neighboring gene Sharpr-MPRA regulatory region 11358 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25487 Neighboring gene uncharacterized LOC105375120 Neighboring gene G protein-coupled receptor 146 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:1109435-1110218 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:1110219-1111001 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:1135129-1135838 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:1140145-1140645 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:1147881-1148424 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:1149827-1150667 Neighboring gene G protein-coupled estrogen receptor 1 Neighboring gene uncharacterized LOC102723758 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr7:1156037-1157236 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_97501 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17843 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17844 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25488 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17845 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:1185078-1185771 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:1198934-1199448 Neighboring gene hESC enhancers GRCh37_chr7:1199449-1199961 and GRCh37_chr7:1199962-1200475 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:1200476-1200988 Neighboring gene zinc finger AN1-type containing 2A Neighboring gene ZFAND2A divergent transcript

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. Epigenome-wide association study in whole blood on type 2 diabetes among sub-Saharan African individuals: findings from the RODAM study. Meeks KAC, et al. Int J Epidemiol, 2019 Feb 1. PMID 30107520, Free PMC Article
  2. A gut-derived hormone regulates cholesterol metabolism. Hu X, et al. Cell, 2024 Mar 28. PMID 38503280
  3. Joint influence of small-effect genetic variants on human longevity. Yashin AI, et al. Aging (Albany NY), 2010 Sep. PMID 20834067, Free PMC Article
  4. Protein microarray analysis identifies human cellular prion protein interactors. Satoh J, et al. Neuropathol Appl Neurobiol, 2009 Feb. PMID 18482256
  5. The Human Tau Interactome: Binding to the Ribonucleoproteome, and Impaired Binding of the Proline-to-Leucine Mutant at Position 301 (P301L) to Chaperones and the Proteasome. Gunawardana CG, et al. Mol Cell Proteomics, 2015 Nov. PMID 26269332, Free PMC Article

See all (94) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. A gut-derived hormone regulates cholesterol metabolism.
    Title: A gut-derived hormone regulates cholesterol metabolism.
  2. Three ubiquitous methylation loci were consistently and strongly associated with type 2 diabetes in Ghanaians: TXNIP, C7orf50 and CPT1A
    Title: Epigenome-wide association study in whole blood on type 2 diabetes among sub-Saharan African individuals: findings from the RODAM study.
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

EBI GWAS Catalog

Description
Discovery and refinement of loci associated with lipid levels.
EBI GWAS Catalog
Joint influence of small-effect genetic variants on human longevity.
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

  • MGC11257

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding HDA PubMed 
enables hormone activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in negative regulation of cholesterol biosynthetic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in signal transduction IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in extracellular space IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
protein cholesin
Names
uncharacterized protein C7orf50

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_001134395.1 → NP_001127867.1  protein cholesin isoform a

    See identical proteins and their annotated locations for NP_001127867.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1-4 all encode the same isoform (a).
    Source sequence(s)
    BC006224, BM676072, CN261680
    Consensus CDS
    CCDS5320.1
    UniProtKB/Swiss-Prot
    Q9BRJ6
    UniProtKB/TrEMBL
    C9JQV0
    Conserved Domains (1) summary
    pfam10180
    Location:104 → 165
    DUF2373; uncharacterized conserved protein (DUF2373)

  2. NM_001134396.1 → NP_001127868.1  protein cholesin isoform a

    See identical proteins and their annotated locations for NP_001127868.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1-4 all encode the same isoform (a).
    Source sequence(s)
    BC006224, BM676072, BM763235
    Consensus CDS
    CCDS5320.1
    UniProtKB/Swiss-Prot
    Q9BRJ6
    UniProtKB/TrEMBL
    C9JQV0
    Related
    ENSP00000380288.2, ENST00000397100.6
    Conserved Domains (1) summary
    pfam10180
    Location:104 → 165
    DUF2373; uncharacterized conserved protein (DUF2373)

  3. NM_001318252.2 → NP_001305181.1  protein cholesin isoform a

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. Variants 1-4 all encode the same isoform (a).
    Source sequence(s)
    AC091729, AF495721, BC006224
    Consensus CDS
    CCDS5320.1
    UniProtKB/Swiss-Prot
    Q9BRJ6
    UniProtKB/TrEMBL
    C9JQV0
    Related
    ENSP00000380286.3, ENST00000397098.8
    Conserved Domains (1) summary
    pfam10180
    Location:104 → 165
    DUF2373; uncharacterized conserved protein (DUF2373)

  4. NM_001350968.1 → NP_001337897.1  protein cholesin isoform b

    Status: VALIDATED

    Source sequence(s)
    AC073957, AC091729
    UniProtKB/TrEMBL
    C9JQV0
    Conserved Domains (1) summary
    pfam10180
    Location:104 → 165
    DUF2373; Uncharacterized conserved protein (DUF2373)

  5. NM_001350969.2 → NP_001337898.1  protein cholesin isoform c

    Status: VALIDATED

    Source sequence(s)
    AC073957
    UniProtKB/TrEMBL
    H7C0T1
    Conserved Domains (1) summary
    pfam10180
    Location:90 → 151
    DUF2373; Uncharacterized conserved protein (DUF2373)

  6. NM_001350970.1 → NP_001337899.1  protein cholesin isoform d

    Status: VALIDATED

    Source sequence(s)
    AC091729

  7. NM_001424325.1 → NP_001411254.1  protein cholesin isoform d

    Status: VALIDATED

    Source sequence(s)
    AC073957, AC091729

  8. NM_001424326.1 → NP_001411255.1  protein cholesin isoform e

    Status: VALIDATED

    Source sequence(s)
    AC073957, AC091729

  9. NM_001424327.1 → NP_001411256.1  protein cholesin isoform f

    Status: VALIDATED

    Source sequence(s)
    AC073957

  10. NM_001424329.1 → NP_001411258.1  protein cholesin isoform g

    Status: VALIDATED

    Source sequence(s)
    AC073957

  11. NM_001424333.1 → NP_001411262.1  protein cholesin isoform a

    Status: VALIDATED

    Source sequence(s)
    CP068271
    UniProtKB/Swiss-Prot
    Q9BRJ6

  12. NM_001424334.1 → NP_001411263.1  protein cholesin isoform a

    Status: VALIDATED

    Source sequence(s)
    CP068271
    UniProtKB/Swiss-Prot
    Q9BRJ6

  13. NM_001424335.1 → NP_001411264.1  protein cholesin isoform b

    Status: VALIDATED

    Source sequence(s)
    CP068271

  14. NM_001424336.1 → NP_001411265.1  protein cholesin isoform e

    Status: VALIDATED

    Source sequence(s)
    CP068271

  15. NM_001424337.1 → NP_001411266.1  protein cholesin isoform d

    Status: VALIDATED

    Source sequence(s)
    CP068271

  16. NM_032350.5 → NP_115726.1  protein cholesin isoform a

    See identical proteins and their annotated locations for NP_115726.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (a). Variants 1-4 all encode the same isoform (a).
    Source sequence(s)
    BC006224, BM676072
    Consensus CDS
    CCDS5320.1
    UniProtKB/Swiss-Prot
    Q9BRJ6
    UniProtKB/TrEMBL
    C9JQV0
    Related
    ENSP00000350011.5, ENST00000357429.10
    Conserved Domains (1) summary
    pfam10180
    Location:104 → 165
    DUF2373; uncharacterized conserved protein (DUF2373)

RNA

  1. NR_134537.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) lacks two 5' exons and uses an alternate 5'-terminal exon, compared to variant 1. This variant is represented as non-coding because the predicted protein does not meet RefSeq quality criteria.
    Source sequence(s)
    BC006224, BM762287
    Related
    ENST00000412051.5

  2. NR_134538.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) lacks several exons and contains two alternate exons, compared to variant 1. This variant is represented as non-coding because the predicted protein does not meet RefSeq quality criteria.
    Source sequence(s)
    AC073957, BC025971, BF129057, BQ006497
    Related
    ENST00000465681.1

  3. NR_146964.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC073957

  4. NR_146965.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC073957

  5. NR_146966.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC073957

  6. NR_146967.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC073957

  7. NR_156697.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC073957

  8. NR_188522.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC073957

  9. NR_188523.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC073957

  10. NR_188524.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC073957

  11. NR_188525.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC073957

  12. NR_188526.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC073957

  13. NR_188533.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC073957

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_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    977964..1138257 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    1082961..1240814 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9BRJ6.1 GenPept UniProtKB/Swiss-Prot:Q9BRJ6

Gene LinkOut

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