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    ZCCHC7 zinc finger CCHC-type containing 7 [ Homo sapiens (human) ]

    Gene ID: 84186, updated on 11-Apr-2024

    Summary

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    Official Symbol
    ZCCHC7provided by HGNC
    Official Full Name
    zinc finger CCHC-type containing 7provided by HGNC
    Primary source
    HGNC:HGNC:26209
    See related
    Ensembl:ENSG00000147905 AllianceGenome:HGNC:26209
    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
    AIR1; HSPC086
    Summary
    Enables RNA binding activity. Located in cytosol and nucleolus. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in lymph node (RPKM 3.6), testis (RPKM 2.2) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See ZCCHC7 in Genome Data Viewer
    Location:
    9p13.2
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (37120167..37358149)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (37143909..37381876)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (37120469..37358146)

    Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr9:37053864-37054416 Neighboring gene MPRA-validated peak7233 silencer Neighboring gene ribosomal protein L32 pseudogene 21 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28377 Neighboring gene endogenous Bornavirus like nucleoprotein 3, pseudogene Neighboring gene uncharacterized LOC105376034 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28378 Neighboring gene NANOG hESC enhancer GRCh37_chr9:37149770-37150271 Neighboring gene uncharacterized LOC105376033 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr9:37184571-37185145 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28379 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28380 Neighboring gene Sharpr-MPRA regulatory region 4584 Neighboring gene ZCCHC7 intron homotypic cluster of transcription factor binding sites enhancer Neighboring gene NANOG hESC enhancer GRCh37_chr9:37226199-37226700 Neighboring gene Sharpr-MPRA regulatory region 4537 Neighboring gene VISTA enhancer hs901 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28382 Neighboring gene RNA, U6 small nuclear 677, pseudogene Neighboring gene uncharacterized LOC124902153 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28383 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28384 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28385 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28386 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28387 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19903 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:37385483-37385983 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28388 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28389 Neighboring gene Sharpr-MPRA regulatory region 4136 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28390 Neighboring gene long intergenic non-protein coding RNA 1627 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28391 Neighboring gene uncharacterized LOC124902154 Neighboring gene uncharacterized LOC105376035

    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
    • 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. Interaction properties of human TRAMP-like proteins and their role in pre-rRNA 5'ETS turnover. Sudo H, et al. FEBS Lett, 2016 Sep. PMID 27434818
    2. Heterogeneous breakpoints in patients with acute lymphoblastic leukemia and the dic(9;20)(p11-13;q11) show recurrent involvement of genes at 20q11.21. An Q, et al. Haematologica, 2009 Aug. PMID 19586940, Free PMC Article
    3. Air1 zinc knuckles 4 and 5 and a conserved IWRXY motif are critical for the function and integrity of the Trf4/5-Air1/2-Mtr4 polyadenylation (TRAMP) RNA quality control complex. Fasken MB, et al. J Biol Chem, 2011 Oct 28. PMID 21878619, Free PMC Article
    4. Specification of SUMO1- and SUMO2-interacting motifs. Hecker CM, et al. J Biol Chem, 2006 Jun 9. PMID 16524884
    5. Linking functions: an additional role for an intrinsically disordered linker domain in the transcriptional coactivator CBP. Contreras-Martos S, et al. Sci Rep, 2017 Jul 5. PMID 28680062, Free PMC Article

    See all (26) 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)

    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

    • FLJ22611

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in TRAMP-dependent tRNA surveillance pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nuclear mRNA surveillance of mRNA 3'-end processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nuclear polyadenylation-dependent CUT catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nuclear polyadenylation-dependent rRNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nuclear polyadenylation-dependent snRNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nuclear polyadenylation-dependent snoRNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of TRAMP complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger CCHC domain-containing protein 7
    Names
    TRAMP-like complex RNA-binding factor ZCCHC7
    zinc finger, CCHC domain containing 7

    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_001289119.2 → NP_001276048.1  zinc finger CCHC domain-containing protein 7

      See identical proteins and their annotated locations for NP_001276048.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, compared to variant 1. Variants 1, 2, 3, and 4 encode the same protein.
      Source sequence(s)
      BC005990, BC034022, BC036940
      Consensus CDS
      CCDS6608.2
      UniProtKB/Swiss-Prot
      B2RCI4, D3DRQ0, Q5T0Q8, Q5T0Q9, Q5T0R0, Q8N2M1, Q8N3Z6, Q8N4J2, Q8TBK8, Q9H648, Q9P0F0
      Conserved Domains (1) summary
      COG5082
      Location:238 → 379
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

    2. NM_001289120.2 → NP_001276049.1  zinc finger CCHC domain-containing protein 7

      See identical proteins and their annotated locations for NP_001276049.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1, 2, 3, and 4 encode the same protein.
      Source sequence(s)
      AK074608, AK315128, AL512604, BC036940, BP216150
      Consensus CDS
      CCDS6608.2
      UniProtKB/Swiss-Prot
      B2RCI4, D3DRQ0, Q5T0Q8, Q5T0Q9, Q5T0R0, Q8N2M1, Q8N3Z6, Q8N4J2, Q8TBK8, Q9H648, Q9P0F0
      Conserved Domains (1) summary
      COG5082
      Location:238 → 379
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

    3. NM_001289121.2 → NP_001276050.1  zinc finger CCHC domain-containing protein 7

      See identical proteins and their annotated locations for NP_001276050.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2, 3, and 4 encode the same protein.
      Source sequence(s)
      AL158155, AL512604, BC036940, BP216150
      Consensus CDS
      CCDS6608.2
      UniProtKB/Swiss-Prot
      B2RCI4, D3DRQ0, Q5T0Q8, Q5T0Q9, Q5T0R0, Q8N2M1, Q8N3Z6, Q8N4J2, Q8TBK8, Q9H648, Q9P0F0
      Related
      ENSP00000443113.2, ENST00000534928.5
      Conserved Domains (1) summary
      COG5082
      Location:238 → 379
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

    4. NM_032226.3 → NP_115602.2  zinc finger CCHC domain-containing protein 7

      See identical proteins and their annotated locations for NP_115602.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR, compared to variant 1. Variants 1, 2, 3, and 4 encode the same protein.
      Source sequence(s)
      AI458621, AK026264, AL158155, BC005990, BP246540
      Consensus CDS
      CCDS6608.2
      UniProtKB/Swiss-Prot
      B2RCI4, D3DRQ0, Q5T0Q8, Q5T0Q9, Q5T0R0, Q8N2M1, Q8N3Z6, Q8N4J2, Q8TBK8, Q9H648, Q9P0F0
      Related
      ENSP00000337839.5, ENST00000336755.10
      Conserved Domains (1) summary
      COG5082
      Location:238 → 379
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

    RNA

    1. NR_110317.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AK026264, AK074608, AK303193, BC036940, BP246540

    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_000009.12 Reference GRCh38.p14 Primary Assembly

      Range
      37120167..37358149
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005251612.4 → XP_005251669.1  zinc finger CCHC domain-containing protein 7 isoform X1

      See identical proteins and their annotated locations for XP_005251669.1

      UniProtKB/Swiss-Prot
      B2RCI4, D3DRQ0, Q5T0Q8, Q5T0Q9, Q5T0R0, Q8N2M1, Q8N3Z6, Q8N4J2, Q8TBK8, Q9H648, Q9P0F0
      Conserved Domains (1) summary
      COG5082
      Location:238 → 379
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

    2. XM_024447691.2 → XP_024303459.1  zinc finger CCHC domain-containing protein 7 isoform X4

      Conserved Domains (1) summary
      cl26705
      Location:40 → 181
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

    3. XM_011518050.3 → XP_011516352.1  zinc finger CCHC domain-containing protein 7 isoform X2

      Conserved Domains (1) summary
      COG5082
      Location:238 → 326
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

    4. XM_017015199.3 → XP_016870688.1  zinc finger CCHC domain-containing protein 7 isoform X4

      Conserved Domains (1) summary
      cl26705
      Location:40 → 181
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

    5. XM_005251608.5 → XP_005251665.1  zinc finger CCHC domain-containing protein 7 isoform X1

      See identical proteins and their annotated locations for XP_005251665.1

      UniProtKB/Swiss-Prot
      B2RCI4, D3DRQ0, Q5T0Q8, Q5T0Q9, Q5T0R0, Q8N2M1, Q8N3Z6, Q8N4J2, Q8TBK8, Q9H648, Q9P0F0
      Conserved Domains (1) summary
      COG5082
      Location:238 → 379
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

    6. XM_017015198.2 → XP_016870687.1  zinc finger CCHC domain-containing protein 7 isoform X2

      Conserved Domains (1) summary
      COG5082
      Location:238 → 326
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

    7. XM_047423958.1 → XP_047279914.1  zinc finger CCHC domain-containing protein 7 isoform X2

    8. XM_017015200.2 → XP_016870689.1  zinc finger CCHC domain-containing protein 7 isoform X4

      Conserved Domains (1) summary
      cl26705
      Location:40 → 181
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

    9. XM_017015197.2 → XP_016870686.1  zinc finger CCHC domain-containing protein 7 isoform X2

      Conserved Domains (1) summary
      COG5082
      Location:238 → 326
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

    10. XM_047423960.1 → XP_047279916.1  zinc finger CCHC domain-containing protein 7 isoform X4

    11. XM_047423957.1 → XP_047279913.1  zinc finger CCHC domain-containing protein 7 isoform X2

    12. XM_047423959.1 → XP_047279915.1  zinc finger CCHC domain-containing protein 7 isoform X4

    13. XM_047423962.1 → XP_047279918.1  zinc finger CCHC domain-containing protein 7 isoform X5

      UniProtKB/TrEMBL
      B4E024

    14. XM_011518051.3 → XP_011516353.1  zinc finger CCHC domain-containing protein 7 isoform X3

      Conserved Domains (1) summary
      COG5082
      Location:44 → 185
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060933.1 Alternate T2T-CHM13v2.0

      Range
      37143909..37381876
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054363953.1 → XP_054219928.1  zinc finger CCHC domain-containing protein 7 isoform X1

      UniProtKB/Swiss-Prot
      B2RCI4, D3DRQ0, Q5T0Q8, Q5T0Q9, Q5T0R0, Q8N2M1, Q8N3Z6, Q8N4J2, Q8TBK8, Q9H648, Q9P0F0

    2. XM_054363964.1 → XP_054219939.1  zinc finger CCHC domain-containing protein 7 isoform X4

    3. XM_054363955.1 → XP_054219930.1  zinc finger CCHC domain-containing protein 7 isoform X2

    4. XM_054363962.1 → XP_054219937.1  zinc finger CCHC domain-containing protein 7 isoform X4

    5. XM_054363954.1 → XP_054219929.1  zinc finger CCHC domain-containing protein 7 isoform X1

      UniProtKB/Swiss-Prot
      B2RCI4, D3DRQ0, Q5T0Q8, Q5T0Q9, Q5T0R0, Q8N2M1, Q8N3Z6, Q8N4J2, Q8TBK8, Q9H648, Q9P0F0

    6. XM_054363957.1 → XP_054219932.1  zinc finger CCHC domain-containing protein 7 isoform X2

    7. XM_054363959.1 → XP_054219934.1  zinc finger CCHC domain-containing protein 7 isoform X2

    8. XM_054363963.1 → XP_054219938.1  zinc finger CCHC domain-containing protein 7 isoform X4

    9. XM_054363958.1 → XP_054219933.1  zinc finger CCHC domain-containing protein 7 isoform X2

    10. XM_054363965.1 → XP_054219940.1  zinc finger CCHC domain-containing protein 7 isoform X4

    11. XM_054363956.1 → XP_054219931.1  zinc finger CCHC domain-containing protein 7 isoform X2

    12. XM_054363961.1 → XP_054219936.1  zinc finger CCHC domain-containing protein 7 isoform X4

    13. XM_054363966.1 → XP_054219941.1  zinc finger CCHC domain-containing protein 7 isoform X5

      UniProtKB/TrEMBL
      B4E024

    14. XM_054363960.1 → XP_054219935.1  zinc finger CCHC domain-containing protein 7 isoform X3

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8N3Z6.2 GenPept UniProtKB/Swiss-Prot:Q8N3Z6

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