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

Gene ID: 84186, updated on 27-Nov-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. Predicted to be involved in nuclear RNA surveillance. Located in cytosol and nucleolus. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in lymph node (RPKM 3.6), testis (RPKM 2.2) and 25 other tissues See more
Orthologs
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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_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (37120167..37358149)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (37143909..37381876)
RS_2024_09 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 (30) 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

  • 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_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
    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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