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C19orf47 chromosome 19 open reading frame 47 [ Homo sapiens (human) ]

Gene ID: 126526, updated on 10-Dec-2024

Summary

Official Symbol
C19orf47provided by HGNC
Official Full Name
chromosome 19 open reading frame 47provided by HGNC
Primary source
HGNC:HGNC:26723
See related
Ensembl:ENSG00000160392 AllianceGenome:HGNC:26723
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 nucleoplasm. [provided by Alliance of Genome Resources, Dec 2024]
Expression
Broad expression in heart (RPKM 2.7), testis (RPKM 2.0) and 25 other tissues See more
Orthologs
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Genomic context

See C19orf47 in Genome Data Viewer
Location:
19q13.2
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (40292954..40348527, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (43113226..43169048, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (40825443..40854434, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene AKT serine/threonine kinase 2 Neighboring gene uncharacterized LOC107985289 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:40757528-40758152 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:40758153-40758776 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:40760793-40761294 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:40761295-40761794 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:40762167-40762909 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:40770063-40770648 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:40770788-40771766 Neighboring gene Sharpr-MPRA regulatory region 4564 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:40774314-40775162 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14642 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14643 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14644 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14645 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14646 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14647 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10619 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr19:40791573-40792404 Neighboring gene microRNA 641 Neighboring gene RNA, U6 small nuclear 945, pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:40829016-40829516 Neighboring gene MPRA-validated peak3483 silencer Neighboring gene Sharpr-MPRA regulatory region 7250 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14648 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10620 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14649 Neighboring gene phospholipase D family member 3 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:40873853-40874018 Neighboring gene Sharpr-MPRA regulatory region 12346 Neighboring gene microRNA 6796 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:40895441-40895990 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:40895991-40896540 Neighboring gene homeodomain interacting protein kinase 4

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

General gene information

Clone Names

  • FLJ36888, DKFZp686P05129

Gene Ontology Provided by GOA

Component Evidence Code Pubs
located_in nucleoplasm  
is_active_in nucleus  

General protein information

Preferred Names
uncharacterized protein C19orf47

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_001256440.1NP_001243369.1  uncharacterized protein C19orf47 isoform 1 precursor

    See identical proteins and their annotated locations for NP_001243369.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1).
    Source sequence(s)
    AI394044, AK094207, AL834131, CR936760
    Consensus CDS
    CCDS58662.1
    UniProtKB/Swiss-Prot
    Q8IZ33, Q8N0V9, Q8N9M1
    Related
    ENSP00000463159.1, ENST00000582783.5
    Conserved Domains (1) summary
    cd09531
    Location:45109
    SAM_CS047; SAM domain of CS047 subfamily
  2. NM_001256441.2NP_001243370.1  uncharacterized protein C19orf47 isoform 2

    See identical proteins and their annotated locations for NP_001243370.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream, in-frame start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AC118344, AI394044, AL834131, BI916290, BM459040
    Consensus CDS
    CCDS92619.1
    UniProtKB/TrEMBL
    A0A804HLH2
    Related
    ENSP00000508349.1, ENST00000683109.1
    Conserved Domains (1) summary
    cd09531
    Location:872
    SAM_CS047; SAM domain of CS047 subfamily

RNA

  1. NR_046202.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) has an alternate 5'-most exon and uses an alternate splice site in the 5' region, compared to variant 1. This variant is represented as non-coding due to the presence of an upstream ORF that is predicted to interfere with translation of the longest ORF; translation of the upstream ORF renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC118344, AI394044, AL834131, BI916290
  2. NR_156465.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses an alternate splice site in the 5' region, compared to variant 1. This variant is represented as non-coding due to the presence of an upstream ORF that is predicted to interfere with translation of the longest ORF; translation of the upstream ORF renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC118344

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_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    40292954..40348527 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011526460.3XP_011524762.1  uncharacterized protein C19orf47 isoform X9

    Conserved Domains (1) summary
    cd09531
    Location:45109
    SAM_CS047; SAM domain of CS047 subfamily
  2. XM_047438176.1XP_047294132.1  uncharacterized protein C19orf47 isoform X7

  3. XM_024451364.2XP_024307132.1  uncharacterized protein C19orf47 isoform X6

    Conserved Domains (1) summary
    cd09531
    Location:872
    SAM_CS047; SAM domain of CS047 subfamily
  4. XM_005258520.3XP_005258577.1  uncharacterized protein C19orf47 isoform X2

    Conserved Domains (1) summary
    cd09531
    Location:45109
    SAM_CS047; SAM domain of CS047 subfamily
  5. XM_017026291.2XP_016881780.1  uncharacterized protein C19orf47 isoform X1

    Conserved Domains (1) summary
    cd09531
    Location:872
    SAM_CS047; SAM domain of CS047 subfamily
  6. XM_024451365.2XP_024307133.1  uncharacterized protein C19orf47 isoform X8

    UniProtKB/TrEMBL
    A0A804HLH2
    Conserved Domains (1) summary
    cd09531
    Location:872
    SAM_CS047; SAM domain of CS047 subfamily
  7. XM_047438177.1XP_047294133.1  uncharacterized protein C19orf47 isoform X8

    UniProtKB/TrEMBL
    A0A804HLH2
  8. XM_047438178.1XP_047294134.1  uncharacterized protein C19orf47 isoform X10

    Related
    ENSP00000375889.2, ENST00000392035.6
  9. XM_047438179.1XP_047294135.1  uncharacterized protein C19orf47 isoform X11

  10. XM_047438175.1XP_047294131.1  uncharacterized protein C19orf47 isoform X5

  11. XM_017026293.3XP_016881782.1  uncharacterized protein C19orf47 isoform X4

  12. XM_017026292.3XP_016881781.1  uncharacterized protein C19orf47 isoform X3

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    43113226..43169048 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054319832.1XP_054175807.1  uncharacterized protein C19orf47 isoform X9

  2. XM_054319829.1XP_054175804.1  uncharacterized protein C19orf47 isoform X7

  3. XM_054319828.1XP_054175803.1  uncharacterized protein C19orf47 isoform X6

  4. XM_054319824.1XP_054175799.1  uncharacterized protein C19orf47 isoform X2

  5. XM_054319823.1XP_054175798.1  uncharacterized protein C19orf47 isoform X1

  6. XM_054319830.1XP_054175805.1  uncharacterized protein C19orf47 isoform X8

    UniProtKB/TrEMBL
    A0A804HLH2
  7. XM_054319831.1XP_054175806.1  uncharacterized protein C19orf47 isoform X8

    UniProtKB/TrEMBL
    A0A804HLH2
  8. XM_054319833.1XP_054175808.1  uncharacterized protein C19orf47 isoform X11

  9. XM_054319827.1XP_054175802.1  uncharacterized protein C19orf47 isoform X5

  10. XM_054319826.1XP_054175801.1  uncharacterized protein C19orf47 isoform X4

  11. XM_054319825.1XP_054175800.1  uncharacterized protein C19orf47 isoform X3

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