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ZC3H11B zinc finger CCCH-type containing 11B [ Homo sapiens (human) ]

Gene ID: 643136, updated on 3-Apr-2024

Summary

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Official Symbol
ZC3H11Bprovided by HGNC
Official Full Name
zinc finger CCCH-type containing 11Bprovided by HGNC
Primary source
HGNC:HGNC:25659
See related
Ensembl:ENSG00000215817 AllianceGenome:HGNC:25659
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
ZC3HDC11B
Summary
Predicted to enable mRNA binding activity. Predicted to be involved in poly(A)+ mRNA export from nucleus. [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
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Genomic context

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See ZC3H11B in Genome Data Viewer
Location:
1q41
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (219608012..219613105, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (218844187..218849370, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (219781354..219786447, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene LYPLAL1 antisense RNA 1 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr1:219728356-219729055 Neighboring gene uncharacterized LOC124904514 Neighboring gene uncharacterized LOC124904657 Neighboring gene Sharpr-MPRA regulatory region 297 Neighboring gene uncharacterized LOC105372926 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr1:219883505-219884704 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_4814 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2549 Neighboring gene RNA, 5S ribosomal pseudogene 76 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2550 Neighboring gene NANOG hESC enhancer GRCh37_chr1:219999577-220000141 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:220006336-220007281 Neighboring gene MPRA-validated peak704 silencer Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:220012377-220013120 Neighboring gene Sharpr-MPRA regulatory region 9893 Neighboring gene uncharacterized LOC107985281 Neighboring gene solute carrier family 30 member 10

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. Association of the ZC3H11B, ZFHX1B and SNTB1 genes with myopia of different severities. Tang SM, et al. Br J Ophthalmol, 2020 Oct. PMID 31300455
  2. Association between Ocular Axial Length-Related Genes and High Myopia in a Han Chinese Population. Li YT, et al. Ophthalmologica, 2016. PMID 26485405
  3. Genetic variants on chromosome 1q41 influence ocular axial length and high myopia. Fan Q, et al. PLoS Genet, 2012. PMID 22685421, Free PMC Article
  4. Regulation of the linear ubiquitination of STAT1 controls antiviral interferon signaling. Zuo Y, et al. Nat Commun, 2020 Mar 2. PMID 32123171, Free PMC Article
  5. Sex-stratified genome-wide association studies including 270,000 individuals show sexual dimorphism in genetic loci for anthropometric traits. Randall JC, et al. PLoS Genet, 2013 Jun. PMID 23754948, Free PMC Article

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Association of the ZC3H11B, ZFHX1B and SNTB1 genes with myopia of different severities.
    Title: Association of the ZC3H11B, ZFHX1B and SNTB1 genes with myopia of different severities.
  2. Genetic variants in ZC3H11B, RSPO1, and GJD2 are associated with susceptibility to the development of high myopia in a Han Chinese population.
    Title: Association between Ocular Axial Length-Related Genes and High Myopia in a Han Chinese Population.
Submit: New GeneRIF Correction

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genetic variants on chromosome 1q41 influence ocular axial length and high myopia.
EBI GWAS Catalog
Nine loci for ocular axial length identified through genome-wide association studies, including shared loci with refractive error.
EBI GWAS Catalog
Sex-stratified genome-wide association studies including 270,000 individuals show sexual dimorphism in genetic loci for anthropometric traits.
EBI GWAS Catalog

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

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in poly(A)+ mRNA export from nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
zinc finger CCCH domain-containing protein 11B
Names
zinc finger CCCH-type domain containing 11B

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_001355457.3 → NP_001342386.1  zinc finger CCCH domain-containing protein 11B

    Status: VALIDATED

    Source sequence(s)
    AL356364
    Consensus CDS
    CCDS86051.1
    UniProtKB/Swiss-Prot
    A0A1B0GTU1
    UniProtKB/TrEMBL
    B4DYM8
    Related
    ENSP00000498875.1, ENST00000651890.2
    Conserved Domains (1) summary
    pfam15663
    Location:1 → 110
    zf-CCCH_3; Zinc-finger containing family

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    219608012..219613105 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    218844187..218849370 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054338181.1 → XP_054194156.1  zinc finger CCCH domain-containing protein 11B isoform X1

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NG_007367.3: Suppressed sequence

    Description
    NG_007367.3: This RefSeq was removed because it is now thought that this locus is a transcribed gene.

  2. NM_001085394.1: Suppressed sequence

    Description
    NM_001085394.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A0A1B0GTU1.1 GenPept UniProtKB/Swiss-Prot:A0A1B0GTU1

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Molecular Biology Databases
Research Materials