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ZC3HC1 zinc finger C3HC-type containing 1 [ Homo sapiens (human) ]

Gene ID: 51530, updated on 10-Dec-2024

Summary

Official Symbol
ZC3HC1provided by HGNC
Official Full Name
zinc finger C3HC-type containing 1provided by HGNC
Primary source
HGNC:HGNC:29913
See related
Ensembl:ENSG00000091732 MIM:619746; AllianceGenome:HGNC:29913
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
Also known as
NIPA; HSPC216
Summary
This gene encodes an F-box-containing protein that is a component of an SCF-type E3 ubiquitin ligase complex that regulates the onset of cell division. The G2/M transition in the cell cycle requires the interaction of the proteins cyclin B1 and cyclin-dependent kinase 1. The activated ubiquitin ligase complex targets the protein cyclin B1 for degradation, preventing this transition to mitosis. [provided by RefSeq, Aug 2013]
Expression
Ubiquitous expression in testis (RPKM 3.8), lymph node (RPKM 2.0) and 25 other tissues See more
Orthologs
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Genomic context

See ZC3HC1 in Genome Data Viewer
Location:
7q32.2
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (130018286..130051451, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (131331648..131364836, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (129658126..129691291, complement)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129416778-129417624 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18633 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18634 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129420163-129421008 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129421855-129422700 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129422701-129423545 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129424259-129424770 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129424771-129425281 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26633 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26634 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr7:129426816-129427326 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129427327-129427837 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129427838-129428347 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129432262-129432762 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129439452-129440063 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129442015-129442516 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129442517-129443016 Neighboring gene microRNA 183 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18636 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18637 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18638 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26635 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129474501-129475160 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr7:129475895-129476430 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr7:129478138-129479337 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129482500-129483326 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129483327-129484153 Neighboring gene ubiquitin conjugating enzyme E2 H Neighboring gene NANOG hESC enhancer GRCh37_chr7:129519616-129520117 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26636 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:129585761-129586260 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129589161-129589732 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr7:129588587-129589160 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26637 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18639 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18640 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:129606459-129606647 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129608210-129608852 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129608853-129609494 Neighboring gene UBE2H divergent transcript Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18641 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129630785-129631284 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129646338-129646838 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129646839-129647339 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26639 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr7:129649077-129650276 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26638 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26640 Neighboring gene RNA, 5S ribosomal pseudogene 245 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129690548-129691340 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26642 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26643 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26644 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18642 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26645 Neighboring gene kelch domain containing 10 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:129780805-129781468 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:129781469-129782132 Neighboring gene long intergenic non-protein coding RNA 3008

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 Functions

What's a GeneRIF?

Phenotypes

EBI GWAS Catalog

Description
Large-scale association analysis identifies 13 new susceptibility loci for coronary artery disease.
EBI GWAS Catalog
Shared genetic susceptibility to ischemic stroke and coronary artery disease: a genome-wide analysis of common variants.
EBI GWAS Catalog

Pathways from PubChem

Interactions

General gene information

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding PubMed 
enables protein kinase binding PubMed 
enables zinc ion binding  
Process Evidence Code Pubs
involved_in cell division  
involved_in protein ubiquitination  
Component Evidence Code Pubs
located_in nuclear membrane  
part_of nuclear pore nuclear basket PubMed 
located_in nucleoplasm  
located_in nucleoplasm  
is_active_in nucleus  
located_in nucleus  

General protein information

Preferred Names
zinc finger C3HC-type protein 1
Names
hematopoietic stem/progenitor cell protein 216
nuclear interacting partner of anaplastic lymphoma kinase (ALK)
nuclear-interacting partner of ALK

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_001282190.2NP_001269119.1  zinc finger C3HC-type protein 1 isoform 2

    See identical proteins and their annotated locations for NP_001269119.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, contains an alternate exon in the 5' coding region, and initiates translation at an alternate start codon compared to variant 1. The encoded isoform (2) has a distinct N-terminus and is shorter than isoform 1.
    Source sequence(s)
    AC073320, AF151050, AK001317, BC011551
    Consensus CDS
    CCDS64767.1
    UniProtKB/TrEMBL
    A4D1L4
    Conserved Domains (2) summary
    pfam07967
    Location:52180
    zf-C3HC; C3HC zinc finger-like
    pfam08600
    Location:227317
    Rsm1; Rsm1-like
  2. NM_001282191.1NP_001269120.1  zinc finger C3HC-type protein 1 isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an in-frame exon in the coding region compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
    Source sequence(s)
    AC073320, AC087071, AF151050, BC011551, BI830062, BM013594
    Consensus CDS
    CCDS75659.1
    UniProtKB/TrEMBL
    A0AAQ5BHH3
    Related
    ENSP00000353933.5, ENST00000360708.9
    Conserved Domains (2) summary
    pfam07967
    Location:73201
    zf-C3HC; C3HC zinc finger-like
    pfam08600
    Location:248395
    Rsm1; Rsm1-like
  3. NM_001363701.1NP_001350630.1  zinc finger C3HC-type protein 1 isoform 4

    Status: REVIEWED

    Source sequence(s)
    AC073320, AC087071
    Consensus CDS
    CCDS87546.1
    UniProtKB/TrEMBL
    A0AAQ5BHH3, C9J0I9
    Related
    ENSP00000418533.1, ENST00000481503.5
    Conserved Domains (2) summary
    pfam07967
    Location:73201
    zf-C3HC; C3HC zinc finger-like
    pfam08600
    Location:376423
    Rsm1; Rsm1-like
  4. NM_016478.5NP_057562.3  zinc finger C3HC-type protein 1 isoform 1

    See identical proteins and their annotated locations for NP_057562.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AC073320, AC087071
    Consensus CDS
    CCDS34753.1
    UniProtKB/Swiss-Prot
    A6NH66, Q75MF3, Q75MF4, Q86WB0, Q8N330, Q96F75, Q9HA34, Q9NVX4, Q9P0R0
    UniProtKB/TrEMBL
    A0AAQ5BHH3
    Related
    ENSP00000351052.4, ENST00000358303.9
    Conserved Domains (2) summary
    pfam07967
    Location:73201
    zf-C3HC; C3HC zinc finger-like
    pfam08600
    Location:248338
    Rsm1; Rsm1-like

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_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    130018286..130051451 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047420454.1XP_047276410.1  zinc finger C3HC-type protein 1 isoform X4

  2. XM_005250403.4XP_005250460.1  zinc finger C3HC-type protein 1 isoform X3

    Conserved Domains (2) summary
    pfam07967
    Location:1477
    zf-C3HC; C3HC zinc finger-like
    pfam08600
    Location:124214
    Rsm1; Rsm1-like
  3. XM_047420453.1XP_047276409.1  zinc finger C3HC-type protein 1 isoform X2

  4. XM_011516288.4XP_011514590.1  zinc finger C3HC-type protein 1 isoform X1

    UniProtKB/TrEMBL
    A4D1L4
    Conserved Domains (2) summary
    pfam07967
    Location:56134
    zf-C3HC; C3HC zinc finger-like
    pfam08600
    Location:181271
    Rsm1; Rsm1-like
  5. XM_011516290.3XP_011514592.1  zinc finger C3HC-type protein 1 isoform X5

    Conserved Domains (2) summary
    pfam07967
    Location:133
    zf-C3HC; C3HC zinc finger-like
    pfam08600
    Location:80170
    Rsm1; Rsm1-like
  6. XM_017012288.2XP_016867777.1  zinc finger C3HC-type protein 1 isoform X5

    Conserved Domains (2) summary
    pfam07967
    Location:133
    zf-C3HC; C3HC zinc finger-like
    pfam08600
    Location:80170
    Rsm1; Rsm1-like

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    131331648..131364836 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054358358.1XP_054214333.1  zinc finger C3HC-type protein 1 isoform X4

  2. XM_054358357.1XP_054214332.1  zinc finger C3HC-type protein 1 isoform X3

  3. XM_054358356.1XP_054214331.1  zinc finger C3HC-type protein 1 isoform X2

  4. XM_054358355.1XP_054214330.1  zinc finger C3HC-type protein 1 isoform X1

  5. XM_054358359.1XP_054214334.1  zinc finger C3HC-type protein 1 isoform X5

  6. XM_054358360.1XP_054214335.1  zinc finger C3HC-type protein 1 isoform X5

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