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ZCCHC10 zinc finger CCHC-type containing 10 [ Homo sapiens (human) ]

Gene ID: 54819, updated on 27-Nov-2024

Summary

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Official Symbol
ZCCHC10provided by HGNC
Official Full Name
zinc finger CCHC-type containing 10provided by HGNC
Primary source
HGNC:HGNC:25954
See related
Ensembl:ENSG00000155329 AllianceGenome:HGNC:25954
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
Summary
Predicted to enable nucleic acid binding activity and zinc ion binding activity. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in lymph node (RPKM 8.3), testis (RPKM 8.2) and 25 other tissues See more
Orthologs
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Genomic context

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See ZCCHC10 in Genome Data Viewer
Location:
5q31.1
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (132996985..133026549, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (133516746..133546308, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (132332677..132362241, complement)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16344 Neighboring gene AFF4 divergent transcript Neighboring gene small nuclear ribonucleoprotein U4/U6.U5 subunit 27 pseudogene Neighboring gene cytochrome c oxidase subunit NDUFA4-like Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23097 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16345 Neighboring gene Sharpr-MPRA regulatory region 5371 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:132386992-132387954 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:132388919-132389881 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:132393803-132394303 Neighboring gene heat shock protein family A (Hsp70) member 4 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23101 Neighboring gene uncharacterized LOC105379178

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. PITX1 protein interacts with ZCCHC10 to regulate hTERT mRNA transcription. Ohira T, et al. PLoS One, 2019. PMID 31404068, Free PMC Article
  2. ZCCHC10 suppresses lung cancer progression and cisplatin resistance by attenuating MDM2-mediated p53 ubiquitination and degradation. Ning Y, et al. Cell Death Dis, 2019 May 28. PMID 31138778, Free PMC Article
  3. Legionella effector AnkX interacts with host nuclear protein PLEKHN1. Yu X, et al. BMC Microbiol, 2018 Jan 5. PMID 29433439, Free PMC Article
  4. Dynamic protein-protein interaction wiring of the human spliceosome. Hegele A, et al. Mol Cell, 2012 Feb 24. PMID 22365833
  5. MAP4K Interactome Reveals STRN4 as a Key STRIPAK Complex Component in Hippo Pathway Regulation. Seo G, et al. Cell Rep, 2020 Jul 7. PMID 32640226, Free PMC Article

See all (30) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. ZCCHC10 exerts its tumor-suppressive effects by stabilizing the p53 protein and can be used a potential prognostic marker and therapeutic target in lung adenocarcinoma.
    Title: ZCCHC10 suppresses lung cancer progression and cisplatin resistance by attenuating MDM2-mediated p53 ubiquitination and degradation.
Submit: New GeneRIF Correction

Phenotypes

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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

  • FLJ20094

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
zinc finger CCHC domain-containing protein 10
Names
zinc finger, CCHC domain containing 10

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_001300816.3 → NP_001287745.1  zinc finger CCHC domain-containing protein 10 isoform 1

    See identical proteins and their annotated locations for NP_001287745.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes isoform 1.
    Source sequence(s)
    AK000101, AK300543, BC022443
    Consensus CDS
    CCDS75301.1
    UniProtKB/Swiss-Prot
    Q8TBK6, Q9NXR4
    Related
    ENSP00000423276.1, ENST00000509437.6
    Conserved Domains (1) summary
    pfam13917
    Location:39 → 76
    zf-CCHC_3; Zinc knuckle

  2. NM_001300817.3 → NP_001287746.1  zinc finger CCHC domain-containing protein 10 isoform 2

    See identical proteins and their annotated locations for NP_001287746.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' terminal exon, compared to variant 1, resulting in an isoform (2) that is shorter than isoform 1.
    Source sequence(s)
    AK000101, AK122970, AK300543, BC022443
    Consensus CDS
    CCDS78060.1
    UniProtKB/TrEMBL
    B3KVL5
    Related
    ENSP00000347533.2, ENST00000355372.6
    Conserved Domains (1) summary
    pfam13917
    Location:39 → 76
    zf-CCHC_3; Zinc knuckle

  3. NM_001300818.3 → NP_001287747.1  zinc finger CCHC domain-containing protein 10 isoform 3

    See identical proteins and their annotated locations for NP_001287747.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame exon in the 3' coding region, compared to variant 1, resulting in an isoform (3) that is shorter than isoform 1.
    Source sequence(s)
    AK000101, AK300543, BC022443, BU165290
    UniProtKB/Swiss-Prot
    Q8TBK6
    UniProtKB/TrEMBL
    B4DU89
    Conserved Domains (1) summary
    pfam13917
    Location:39 → 76
    zf-CCHC_3; Zinc knuckle

  4. NM_001300819.3 → NP_001287748.1  zinc finger CCHC domain-containing protein 10 isoform 5

    See identical proteins and their annotated locations for NP_001287748.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) lacks an alternate in-frame exon in both the 5' and 3' coding regions, compared to variant 1, resulting in an isoform (5) that is shorter than isoform 1.
    Source sequence(s)
    AK000101, AK300543, BC022443
    Consensus CDS
    CCDS75300.1
    UniProtKB/TrEMBL
    G3XAM1
    Related
    ENSP00000427430.1, ENST00000513848.5
    Conserved Domains (1) summary
    pfam13917
    Location:17 → 54
    zf-CCHC_3; Zinc knuckle

  5. NM_001300822.3 → NP_001287751.1  zinc finger CCHC domain-containing protein 10 isoform 6

    See identical proteins and their annotated locations for NP_001287751.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) uses an alternate splice site that results in a frameshift in the 3' coding region, compared to variant 1, resulting in an isoform (6) that has a distinct C-terminus and is shorter than isoform 1.
    Source sequence(s)
    AK000101, AK300543, BC022443, CB112418
    Consensus CDS
    CCDS75302.1
    UniProtKB/TrEMBL
    D6R9G7
    Related
    ENSP00000422111.1, ENST00000513541.5
    Conserved Domains (1) summary
    pfam13917
    Location:39 → 76
    zf-CCHC_3; Zinc knuckle

  6. NM_001308127.2 → NP_001295056.1  zinc finger CCHC domain-containing protein 10 isoform 9

    Status: VALIDATED

    Description
    Transcript Variant: This variant (9) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1, resulting in an isoform (9) that is longer than isoform 1.
    Source sequence(s)
    AK000101, DA905071
    UniProtKB/Swiss-Prot
    Q8TBK6
    UniProtKB/TrEMBL
    B4DU89
    Conserved Domains (1) summary
    pfam13917
    Location:49 → 88
    zf-CCHC_3; Zinc knuckle

  7. NM_001308128.2 → NP_001295057.1  zinc finger CCHC domain-containing protein 10 isoform 10

    Status: VALIDATED

    Description
    Transcript Variant: This variant (10) lacks two alternate in-frame exons in the central coding region, compared to variant 1, resulting in an isoform (10) that is shorter than isoform 1.
    Source sequence(s)
    AK000101, DA345717
    UniProtKB/Swiss-Prot
    Q8TBK6

  8. NM_001308129.2 → NP_001295058.1  zinc finger CCHC domain-containing protein 10 isoform 11

    See identical proteins and their annotated locations for NP_001295058.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (11) lacks three alternate in-frame exons in the central coding region, compared to variant 1, resulting in an isoform (11) that is shorter than isoform 1.
    Source sequence(s)
    AK000101, AK300543, BI766652
    UniProtKB/Swiss-Prot
    Q8TBK6
    UniProtKB/TrEMBL
    B4DU89

  9. NM_001308130.2 → NP_001295059.1  zinc finger CCHC domain-containing protein 10 isoform 12

    See identical proteins and their annotated locations for NP_001295059.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (12) lacks an alternate in-frame exon in the 5' coding region, and uses an alternate splice site that results in a frameshift in the 3' coding region, compared to variant 1. The encoded isoform (12) has a distinct C-terminus and is shorter than isoform 1.
    Source sequence(s)
    AK000101, AK300543, DA528172
    Consensus CDS
    CCDS78059.1
    UniProtKB/TrEMBL
    D6RHC2
    Related
    ENSP00000421071.1, ENST00000509008.1
    Conserved Domains (1) summary
    pfam13917
    Location:17 → 54
    zf-CCHC_3; Zinc knuckle

  10. NM_017665.4 → NP_060135.1  zinc finger CCHC domain-containing protein 10 isoform 4

    See identical proteins and their annotated locations for NP_060135.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1, resulting in an isoform (4) that is shorter than isoform 1.
    Source sequence(s)
    AK000101, AK300543
    Consensus CDS
    CCDS4165.1
    UniProtKB/Swiss-Prot
    Q8TBK6
    UniProtKB/TrEMBL
    B4DU89
    Related
    ENSP00000324274.3, ENST00000324170.7
    Conserved Domains (1) summary
    pfam13917
    Location:17 → 54
    zf-CCHC_3; Zinc knuckle

RNA

  1. NR_125337.3 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (8) uses an alternate splice site in the 5' terminal exon and lacks an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translation start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK000101, AK300543, BM470321

  2. NR_131766.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) uses an alternate splice site in the 5' terminal exon, lacks an internal exon but contains a different internal exon, and uses an alternate splice site in another internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK000101, AK300543, DA466245

  3. NR_131767.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (13) uses an alternate splice site in the 5' terminal exon, lacks an internal exon and uses an alternate splice site in another internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translation start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK000101, AK300543, BF983215

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_000005.10 Reference GRCh38.p14 Primary Assembly

    Range
    132996985..133026549 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011543502.2 → XP_011541804.1  zinc finger CCHC domain-containing protein 10 isoform X1

    Conserved Domains (1) summary
    pfam13917
    Location:49 → 88
    zf-CCHC_3; Zinc knuckle

  2. XM_011543503.3 → XP_011541805.1  zinc finger CCHC domain-containing protein 10 isoform X2

    Conserved Domains (1) summary
    pfam13917
    Location:49 → 88
    zf-CCHC_3; Zinc knuckle

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    133516746..133546308 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054352862.1 → XP_054208837.1  zinc finger CCHC domain-containing protein 10 isoform X1

  2. XM_054352863.1 → XP_054208838.1  zinc finger CCHC domain-containing protein 10 isoform X2

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8TBK6.1 GenPept UniProtKB/Swiss-Prot:Q8TBK6

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