U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

    ZCCHC9 zinc finger CCHC-type containing 9 [ Homo sapiens (human) ]

    Gene ID: 84240, updated on 9-Jun-2024

    Summary

    Official Symbol
    ZCCHC9provided by HGNC
    Official Full Name
    zinc finger CCHC-type containing 9provided by HGNC
    Primary source
    HGNC:HGNC:25424
    See related
    Ensembl:ENSG00000131732 MIM:620382; AllianceGenome:HGNC:25424
    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
    PPP1R41
    Summary
    Enables RNA binding activity. Located in nucleolus and nucleoplasm. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in placenta (RPKM 8.9), appendix (RPKM 8.7) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See ZCCHC9 in Genome Data Viewer
    Location:
    5q14.1
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (81301587..81313297)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (81786162..81797883)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (80597406..80609116)

    Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene Ras protein specific guanine nucleotide releasing factor 2 Neighboring gene uncharacterized LOC124901017 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22730 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr5:80564272-80565471 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:80565548-80566100 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:80566101-80566651 Neighboring gene CKMT2 antisense RNA 1 Neighboring gene MPRA-validated peak5313 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:80597135-80597924 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:80597925-80598714 Neighboring gene creatine kinase, mitochondrial 2 Neighboring gene acyl-CoA thioesterase 12 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr5:80728863-80729548 Neighboring gene NANOG hESC enhancer GRCh37_chr5:80746651-80747152 Neighboring gene single stranded DNA binding protein 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16141 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:80983594-80984094 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16142 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16143 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16144 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16145 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16146 Neighboring gene CRISPRi-validated cis-regulatory element chr5.2009 Neighboring gene CRISPRi-validated cis-regulatory element chr5.2010 Neighboring gene uncharacterized LOC107986384

    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

    Clone Names

    • DKFZp761J139

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     

    General protein information

    Preferred Names
    zinc finger CCHC domain-containing protein 9
    Names
    protein phosphatase 1, regulatory subunit 41
    zinc finger, CCHC domain containing 9

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001131035.2NP_001124507.1  zinc finger CCHC domain-containing protein 9

      See identical proteins and their annotated locations for NP_001124507.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has an alternate splice site, which results in a shorter 5' UTR, as compared to variant 1.
      Source sequence(s)
      AC008411, AI961614, BC032736, BG776648, CB126982
      Consensus CDS
      CCDS4054.1
      UniProtKB/Swiss-Prot
      B2RAE7, Q8N567, Q9H027
      Related
      ENSP00000385047.3, ENST00000407610.8
      Conserved Domains (1) summary
      PTZ00368
      Location:130229
      PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
    2. NM_001131036.2NP_001124508.1  zinc finger CCHC domain-containing protein 9

      See identical proteins and their annotated locations for NP_001124508.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) has an alternate splice site, which results in a shorter 5' UTR, as compared to variant 1.
      Source sequence(s)
      AC008411, AI961614, BC032736, BG776648, CN261947
      Consensus CDS
      CCDS4054.1
      UniProtKB/Swiss-Prot
      B2RAE7, Q8N567, Q9H027
      Related
      ENSP00000369546.5, ENST00000380199.9
      Conserved Domains (1) summary
      PTZ00368
      Location:130229
      PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
    3. NM_032280.3NP_115656.1  zinc finger CCHC domain-containing protein 9

      See identical proteins and their annotated locations for NP_115656.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) is the longest transcript. Variants 1-3 encode the same protein.
      Source sequence(s)
      AC008411, AI961614, AK314160, BC022799, BC032736, BG776648
      Consensus CDS
      CCDS4054.1
      UniProtKB/Swiss-Prot
      B2RAE7, Q8N567, Q9H027
      Related
      ENSP00000412637.2, ENST00000438268.2
      Conserved Domains (1) summary
      PTZ00368
      Location:130229
      PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional

    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
      81301587..81313297
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047417827.1XP_047273783.1  zinc finger CCHC domain-containing protein 9 isoform X1

      UniProtKB/Swiss-Prot
      B2RAE7, Q8N567, Q9H027
    2. XM_047417828.1XP_047273784.1  zinc finger CCHC domain-containing protein 9 isoform X1

      UniProtKB/Swiss-Prot
      B2RAE7, Q8N567, Q9H027
      Related
      ENSP00000254037.2, ENST00000254037.6

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060929.1 Alternate T2T-CHM13v2.0

      Range
      81786162..81797883
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054353682.1XP_054209657.1  zinc finger CCHC domain-containing protein 9 isoform X1

    2. XM_054353683.1XP_054209658.1  zinc finger CCHC domain-containing protein 9 isoform X1