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    C9orf85 chromosome 9 open reading frame 85 [ Homo sapiens (human) ]

    Gene ID: 138241, updated on 10-Dec-2024

    Summary

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    Official Symbol
    C9orf85provided by HGNC
    Official Full Name
    chromosome 9 open reading frame 85provided by HGNC
    Primary source
    HGNC:HGNC:28784
    See related
    Ensembl:ENSG00000155621 MIM:620761; AllianceGenome:HGNC:28784
    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
    Ubiquitous expression in urinary bladder (RPKM 3.1), testis (RPKM 2.7) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See C9orf85 in Genome Data Viewer
    Location:
    9q21.13
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (71911639..71986058)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (84061989..84136715)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (74526555..74600974)

    Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene glucosamine-6-phosphate deaminase 2 pseudogene Neighboring gene abhydrolase domain containing 17B, depalmitoylase Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19945 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28455 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28456 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28457 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:74534388-74534894 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:74535401-74535906 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr9:74535907-74536412 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr9:74536413-74536918 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:74568411-74569057 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:74578682-74579426 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:74579427-74580171 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr9:74604827-74606026 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:74622307-74622838 Neighboring gene Sharpr-MPRA regulatory region 3495 Neighboring gene heat shock protein family B (small) member 1 pseudogene 1 Neighboring gene uncharacterized LOC101927108 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr9:74663139-74664338 Neighboring gene chromosome 9 open reading frame 57

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. Single-gene knockout-coupled omics analysis identifies C9orf85 and CXorf38 as two uncharacterized human proteins associated with ZIP8 malfunction. Tan HW, et al. Front Mol Biosci, 2022. PMID 36330220, Free PMC Article
    2. DNA sequence and analysis of human chromosome 9. Humphray SJ, et al. Nature, 2004 May 27. PMID 15164053, Free PMC Article
    3. Identification of intrahepatic cholangiocarcinoma related genes by comparison with normal liver tissues using expressed sequence tags. Wang AG, et al. Biochem Biophys Res Commun, 2006 Jul 7. PMID 16712791
    4. TNIP2 is a Hub Protein in the NF-κB Network with Both Protein and RNA Mediated Interactions. Banks CA, et al. Mol Cell Proteomics, 2016 Nov. PMID 27609421, Free PMC Article
    5. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. Lamesch P, et al. Genomics, 2007 Mar. PMID 17207965, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC61599

    General protein information

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    Preferred Names
    uncharacterized protein C9orf85

    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_001365053.2 → NP_001351982.1  uncharacterized protein C9orf85 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AL138751
      Consensus CDS
      CCDS94421.1
      UniProtKB/Swiss-Prot
      Q5W0N1, Q5W0N3, Q6PJW9, Q86U95, Q96MD7
      Related
      ENSP00000366230.3, ENST00000377031.7
      Conserved Domains (1) summary
      pfam10217
      Location:14 → 102
      DUF2039; Uncharacterized conserved protein (DUF2039)

    2. NM_001365055.2 → NP_001351984.1  uncharacterized protein C9orf85 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AA442437, BC010179, BC052375, BQ020559, BQ431408, CB113688
      Conserved Domains (1) summary
      pfam10217
      Location:8 → 83
      DUF2039; Uncharacterized conserved protein (DUF2039)

    3. NM_001365057.2 → NP_001351986.1  uncharacterized protein C9orf85 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AL138751, BC028019
      UniProtKB/TrEMBL
      F6X0R3
      Conserved Domains (1) summary
      pfam10217
      Location:14 → 69
      DUF2039; Uncharacterized conserved protein (DUF2039)

    4. NM_182505.5 → NP_872311.2  uncharacterized protein C9orf85 isoform 2

      See identical proteins and their annotated locations for NP_872311.2

      Status: VALIDATED

      Source sequence(s)
      BC010179, BC052375, BQ020559, BQ431408, CB113688
      Consensus CDS
      CCDS6639.1
      UniProtKB/Swiss-Prot
      Q96MD7
      Related
      ENSP00000334289.2, ENST00000334731.7
      Conserved Domains (1) summary
      pfam10217
      Location:14 → 102
      DUF2039; Uncharacterized conserved protein (DUF2039)

    RNA

    1. NR_157408.2 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AK311206, AL138751

    2. NR_157409.2 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL138751

    3. NR_157410.2 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL138751

    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_000009.12 Reference GRCh38.p14 Primary Assembly

      Range
      71911639..71986058
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047422767.1 → XP_047278723.1  uncharacterized protein C9orf85 isoform X1

    2. XM_047422768.1 → XP_047278724.1  uncharacterized protein C9orf85 isoform X2

    3. XM_047422769.1 → XP_047278725.1  uncharacterized protein C9orf85 isoform X3

      UniProtKB/TrEMBL
      F6X0R3

    RNA

    1. XR_007061245.1 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060933.1 Alternate T2T-CHM13v2.0

      Range
      84061989..84136715
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054361973.1 → XP_054217948.1  uncharacterized protein C9orf85 isoform X1

    2. XM_054361974.1 → XP_054217949.1  uncharacterized protein C9orf85 isoform X2

    3. XM_054361975.1 → XP_054217950.1  uncharacterized protein C9orf85 isoform X3

      UniProtKB/TrEMBL
      F6X0R3

    RNA

    1. XR_008487940.1 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_198394.1: Suppressed sequence

      Description
      NM_198394.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q96MD7.1 GenPept UniProtKB/Swiss-Prot:Q96MD7

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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