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C4orf47 chromosome 4 open reading frame 47 [ Homo sapiens (human) ]

Gene ID: 441054, updated on 5-Aug-2022

Summary

Official Symbol
C4orf47provided by HGNC
Official Full Name
chromosome 4 open reading frame 47provided by HGNC
Primary source
HGNC:HGNC:34346
See related
Ensembl:ENSG00000205129 AllianceGenome:HGNC:34346
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
Summary
Located in 9+0 non-motile cilium; centrosome; and cytoplasmic microtubule. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in testis (RPKM 3.0), thyroid (RPKM 0.8) and 5 other tissues See more
Orthologs
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Genomic context

See C4orf47 in Genome Data Viewer
Location:
4q35.1
Exon count:
9
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (185408434..185449826)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (188769596..188793104)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (186347408..186370980)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene sorting nexin 25 Neighboring gene uncharacterized LOC124900827 Neighboring gene LRP2 binding protein Neighboring gene ankyrin repeat domain 37 Neighboring gene UFM1 specific peptidase 2 Neighboring gene Sharpr-MPRA regulatory region 8879 Neighboring gene coiled-coil domain containing 110 Neighboring gene uncharacterized LOC105377590

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Component Evidence Code Pubs
located_in 9+0 non-motile cilium IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in centrosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in centrosome IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasmic microtubule IDA
Inferred from Direct Assay
more info
PubMed 

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_001114357.3NP_001107829.1  UPF0602 protein C4orf47 isoform 1

    See identical proteins and their annotated locations for NP_001107829.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC106897
    Consensus CDS
    CCDS47169.1
    UniProtKB/Swiss-Prot
    A7E2U8, Q5BLP7
    Related
    ENSP00000368127.4, ENST00000378850.5
    Conserved Domains (1) summary
    pfam15239
    Location:10293
    DUF4586; Domain of unknown function (DUF4586)
  2. NM_001346007.2NP_001332936.1  UPF0602 protein C4orf47 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, uses an alternate translation start site, and lacks two alternate exons in the 5' coding region compared to variant 1. The encoded isoform (2) is shorter and has a distinct N-terminus compared to isoform 1.
    Source sequence(s)
    AC106897

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000004.12 Reference GRCh38.p14 Primary Assembly

    Range
    185408434..185449826
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017008239.2XP_016863728.1  UPF0602 protein C4orf47 isoform X1

    UniProtKB/Swiss-Prot
    A7E2U8, Q5BLP7
    Conserved Domains (1) summary
    pfam15239
    Location:10293
    DUF4586; Domain of unknown function (DUF4586)
  2. XM_017008238.2XP_016863727.1  UPF0602 protein C4orf47 isoform X1

    UniProtKB/Swiss-Prot
    A7E2U8, Q5BLP7
    Conserved Domains (1) summary
    pfam15239
    Location:10293
    DUF4586; Domain of unknown function (DUF4586)
  3. XM_017008240.2XP_016863729.1  UPF0602 protein C4orf47 isoform X1

    UniProtKB/Swiss-Prot
    A7E2U8, Q5BLP7
    Conserved Domains (1) summary
    pfam15239
    Location:10293
    DUF4586; Domain of unknown function (DUF4586)
  4. XM_011531989.3XP_011530291.1  UPF0602 protein C4orf47 isoform X1

    See identical proteins and their annotated locations for XP_011530291.1

    UniProtKB/Swiss-Prot
    A7E2U8, Q5BLP7
    Conserved Domains (1) summary
    pfam15239
    Location:10293
    DUF4586; Domain of unknown function (DUF4586)
  5. XM_047415721.1XP_047271677.1  UPF0602 protein C4orf47 isoform X2

  6. XM_047415719.1XP_047271675.1  UPF0602 protein C4orf47 isoform X1

    UniProtKB/Swiss-Prot
    Q5BLP7
  7. XM_047415718.1XP_047271674.1  UPF0602 protein C4orf47 isoform X1

    UniProtKB/Swiss-Prot
    Q5BLP7
  8. XM_047415720.1XP_047271676.1  UPF0602 protein C4orf47 isoform X2

  9. XM_047415722.1XP_047271678.1  UPF0602 protein C4orf47 isoform X3

    Related
    ENSP00000422279.1, ENST00000511138.5

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    188769596..188793104
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)