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ZCCHC8 zinc finger CCHC-type containing 8 [ Homo sapiens (human) ]

Gene ID: 55596, updated on 3-Mar-2019

Summary

Official Symbol
ZCCHC8provided by HGNC
Official Full Name
zinc finger CCHC-type containing 8provided by HGNC
Primary source
HGNC:HGNC:25265
See related
Ensembl:ENSG00000033030 MIM:616381
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This gene encodes a scaffold protein which serves as an assessory factor to the nuclear RNA exosome complex. The encoded protein forms a trimeric human nuclear exosome targeting (NEXT) complex, together with hMTR4 and the RNA-binding factor RBM7 which promotes the exosomal degradation of non-coding promoter-upstream transcripts, enhancer RNAs and 3'-extended products of histone- and small nuclear RNA transcription. This complex is also thought to recruit the exosome to degrade intronic RNAs via its interaction with both the exosome and the spliceosome. It contains both an N-terminal zinc-knuckle domain and a C-terminal proline-rich domain. [provided by RefSeq, Apr 2017]
Expression
Ubiquitous expression in bone marrow (RPKM 13.2), testis (RPKM 5.5) and 25 other tissues See more
Orthologs

Genomic context

See ZCCHC8 in Genome Data Viewer
Location:
12q24.31
Exon count:
17
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 12 NC_000012.12 (122471599..122501184, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (122956146..122985543, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene CAP-Gly domain containing linker protein 1 Neighboring gene ribosomal protein L21 pseudogene 1 Neighboring gene CLIP1 antisense RNA 1 Neighboring gene arginine and serine rich coiled-coil 2 Neighboring gene kinetochore associated 1

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

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • DKFZp434E2220

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
mRNA splicing, via spliceosome IC
Inferred by Curator
more info
PubMed 
Component Evidence Code Pubs
TRAMP complex IDA
Inferred from Direct Assay
more info
PubMed 
catalytic step 2 spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
nuclear body IDA
Inferred from Direct Assay
more info
 
NOT nucleolus IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
zinc finger CCHC domain-containing protein 8
Names
TRAMP-like complex RNA-binding factor ZCCHC8
zinc finger, CCHC domain containing 8

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_053194.1 RefSeqGene

    Range
    5001..34475
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001350935.1NP_001337864.1  zinc finger CCHC domain-containing protein 8 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks three alternate exons in the 5' coding region, compared to variant (1). The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AC127002, BE048845
    Conserved Domains (1) summary
    smart00581
    Location:206258
    PSP; proline-rich domain in spliceosome associated proteins
  2. NM_001350936.1NP_001337865.1  zinc finger CCHC domain-containing protein 8 isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (3) has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AC127002, BE048845
    Conserved Domains (2) summary
    smart00581
    Location:184236
    PSP; proline-rich domain in spliceosome associated proteins
    pfam00098
    Location:128145
    zf-CCHC; Zinc knuckle
  3. NM_001350937.1NP_001337866.1  zinc finger CCHC domain-containing protein 8 isoform 4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (4) has a shorter N-terminus, compared to isoform 1. Both variants 4 and 5 encode the same isoform (4).
    Source sequence(s)
    AC127002, BE048845
    Consensus CDS
    CCDS86340.1
    Related
    ENSP00000438993.1, ENST00000543897.5
    Conserved Domains (1) summary
    smart00581
    Location:4597
    PSP; proline-rich domain in spliceosome associated proteins
  4. NM_001350938.1NP_001337867.1  zinc finger CCHC domain-containing protein 8 isoform 4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (4) has a shorter N-terminus, compared to isoform 1. Both variants 4 and 5 encode the same isoform (4).
    Source sequence(s)
    AC127002, BE048845
    Consensus CDS
    CCDS86340.1
    Conserved Domains (1) summary
    smart00581
    Location:4597
    PSP; proline-rich domain in spliceosome associated proteins
  5. NM_017612.4NP_060082.2  zinc finger CCHC domain-containing protein 8 isoform 1

    See identical proteins and their annotated locations for NP_060082.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC127002, AK074638, BE048845, DB048019
    UniProtKB/Swiss-Prot
    Q6NZY4
    Related
    ENSP00000488055.1, ENST00000633063.1
    Conserved Domains (2) summary
    smart00581
    Location:283335
    PSP; proline-rich domain in spliceosome associated proteins
    pfam00098
    Location:227244
    zf-CCHC; Zinc knuckle

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p12 Primary Assembly

    Range
    122471599..122501184 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017019606.1XP_016875095.1  zinc finger CCHC domain-containing protein 8 isoform X1

    Conserved Domains (2) summary
    smart00581
    Location:192244
    PSP; proline-rich domain in spliceosome associated proteins
    smart00343
    Location:138152
    ZnF_C2HC; zinc finger
  2. XM_024449044.1XP_024304812.1  zinc finger CCHC domain-containing protein 8 isoform X2

    Conserved Domains (1) summary
    smart00581
    Location:2577
    PSP; proline-rich domain in spliceosome associated proteins

RNA

  1. XR_944614.3 RNA Sequence

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