Free for academic non-profit institutions. Other users need a Commercial license

Aliases for ZCRB1 Gene

Aliases for ZCRB1 Gene

  • Zinc Finger CCHC-Type And RNA Binding Motif Containing 1 2 3 5
  • U11/U12 Small Nuclear Ribonucleoprotein 31 KDa Protein 3 4
  • U11/U12 SnRNP 31 KDa Protein 3 4
  • U11/U12 SnRNP 31K 2 3
  • U11/U12-31K 3 4
  • Zinc Finger CCHC-Type And RNA-Binding Motif-Containing Protein 1 3
  • Zinc Finger CCHC-Type And RNA Binding Motif 1 3
  • SNRNP31 3
  • ZCCHC19 3
  • MADP-1 3
  • MADP1 3
  • RBM36 3

External Ids for ZCRB1 Gene

Previous GeneCards Identifiers for ZCRB1 Gene

  • GC12M040993
  • GC12M042705
  • GC12M039732

Summaries for ZCRB1 Gene

Entrez Gene Summary for ZCRB1 Gene

  • Pre-mRNA splicing is catalyzed by the spliceosome. U12-type spliceosome binds U12-type pre-mRNAs and recognizes the 5' splice site and branch-point sequence. U11 and U12 snRNPs are components of U12-type spliceosome and function as a molecular bridge connecting both ends of the intron. The protein encoded by this gene contains a RNA recognition motif. It was identified as one of the protein components of U11/U12 snRNPs. This protein and many other U11/U12 snRNP proteins are highly conserved in organisms known to contain U12-type introns. These proteins have been shown to be essential for cell viability, suggesting the key roles in U12-type splicing. [provided by RefSeq, Jul 2008]

GeneCards Summary for ZCRB1 Gene

ZCRB1 (Zinc Finger CCHC-Type And RNA Binding Motif Containing 1) is a Protein Coding gene. Among its related pathways are mRNA Splicing - Major Pathway and Gene Expression. GO annotations related to this gene include nucleic acid binding and nucleotide binding.

Additional gene information for ZCRB1 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ZCRB1 Gene

Genomics for ZCRB1 Gene

Regulatory Elements for ZCRB1 Gene

Enhancers for ZCRB1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH12H042324 1.1 ENCODE 12.8 -0.2 -201 3.1 FOXA2 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 FOS SP3 SP5 ENSG00000257225 ZCRB1 ENSG00000252917 PPHLN1 GXYLT1 YAF2
GH12H042468 1.1 Ensembl ENCODE 11.3 -143.6 -143631 3.1 HDGF PKNOX1 FOXA2 RB1 BMI1 BATF ZNF143 ATF7 ETV6 RUNX3 ZCRB1 PPHLN1 ENSG00000257225 ENSG00000258068
GH12H042236 1.1 ENCODE 10.3 +88.7 88731 4.1 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF143 SP3 SP5 MXD4 NFYC ENSG00000257225 PPHLN1 GXYLT1 ZCRB1 YAF2 GC12P042227
GH12H042280 0.7 ENCODE 11 +44.1 44136 2.2 FOXA2 CEBPB REST ZNF843 RAD21 RARA OSR2 JUND PRDM6 GATA3 YAF2 ZCRB1 GXYLT1 PPHLN1 LOC727884 GC12P042242
GH12H042446 0.6 ENCODE 12.2 -120.7 -120748 1.5 OSR2 GATA3 PRDM6 INSM2 FOXP2 FEZF1 WT1 TRIM28 FOXA1 ENSG00000257225 ZCRB1 RNU6-249P GC12P042455 LOC100132797
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around ZCRB1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for ZCRB1 Gene

Genomic Locations for ZCRB1 Gene
14,053 bases
Minus strand

Genomic View for ZCRB1 Gene

Genes around ZCRB1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZCRB1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZCRB1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZCRB1 Gene

Proteins for ZCRB1 Gene

  • Protein details for ZCRB1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Zinc finger CCHC-type and RNA-binding motif-containing protein 1
    Protein Accession:
    Secondary Accessions:
    • Q6PJX0
    • Q96TA6

    Protein attributes for ZCRB1 Gene

    217 amino acids
    Molecular mass:
    24592 Da
    Quaternary structure:
    • Component of the U11/U12 snRNPs that are part of the U12-type spliceosome.

    Three dimensional structures from OCA and Proteopedia for ZCRB1 Gene

neXtProt entry for ZCRB1 Gene

Post-translational modifications for ZCRB1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for ZCRB1 Gene

No data available for DME Specific Peptides for ZCRB1 Gene

Domains & Families for ZCRB1 Gene

Gene Families for ZCRB1 Gene

Suggested Antigen Peptide Sequences for ZCRB1 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with ZCRB1: view

No data available for UniProtKB/Swiss-Prot for ZCRB1 Gene

Function for ZCRB1 Gene

Molecular function for ZCRB1 Gene

UniProtKB/Swiss-Prot Induction:
Up-regulated by morphine. Down-regulated at 30-36 degrees Celsius while it is up-regulated at 39 degrees Celsius.

Gene Ontology (GO) - Molecular Function for ZCRB1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding IDA,IEA 22658674
GO:0008270 zinc ion binding IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZCRB1: view

Phenotypes for ZCRB1 Gene

GenomeRNAi human phenotypes for ZCRB1:
genes like me logo Genes that share phenotypes with ZCRB1: view

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ZCRB1 Gene

Localization for ZCRB1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZCRB1 Gene

Nucleus, nucleoplasm.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for ZCRB1 gene
Compartment Confidence
nucleus 5

Gene Ontology (GO) - Cellular Components for ZCRB1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
GO:0005681 spliceosomal complex IEA --
GO:0005689 U12-type spliceosomal complex IDA 15146077
genes like me logo Genes that share ontologies with ZCRB1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for ZCRB1 Gene

Pathways & Interactions for ZCRB1 Gene

genes like me logo Genes that share pathways with ZCRB1: view

Pathways by source for ZCRB1 Gene

Gene Ontology (GO) - Biological Process for ZCRB1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0006397 mRNA processing IEA --
GO:0008380 RNA splicing IC 15146077
genes like me logo Genes that share ontologies with ZCRB1: view

No data available for SIGNOR curated interactions for ZCRB1 Gene

Drugs & Compounds for ZCRB1 Gene

No Compound Related Data Available

Transcripts for ZCRB1 Gene

Unigene Clusters for ZCRB1 Gene

Zinc finger CCHC-type and RNA binding motif 1:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for ZCRB1 Gene

No ASD Table

Relevant External Links for ZCRB1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for ZCRB1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ZCRB1 Gene

Protein differential expression in normal tissues from HIPED for ZCRB1 Gene

This gene is overexpressed in Testis (32.6), CD8 Tcells (18.0), Rectum (7.5), and Blymphocyte (6.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for ZCRB1 Gene

Protein tissue co-expression partners for ZCRB1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of ZCRB1 Gene:


SOURCE GeneReport for Unigene cluster for ZCRB1 Gene:


Evidence on tissue expression from TISSUES for ZCRB1 Gene

  • Nervous system(4.5)
  • Lung(4.2)
genes like me logo Genes that share expression patterns with ZCRB1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for ZCRB1 Gene

Orthologs for ZCRB1 Gene

This gene was present in the common ancestor of animals.

Orthologs for ZCRB1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia ZCRB1 33 34
  • 99.69 (n)
(Bos Taurus)
Mammalia ZCRB1 33 34
  • 95.39 (n)
(Canis familiaris)
Mammalia ZCRB1 33 34
  • 95.08 (n)
(Ornithorhynchus anatinus)
Mammalia ZCRB1 34
  • 93 (a)
(Rattus norvegicus)
Mammalia Zcrb1 33
  • 90.02 (n)
(Mus musculus)
Mammalia Zcrb1 33 16 34
  • 89.25 (n)
(Monodelphis domestica)
Mammalia -- 34
  • 89 (a)
-- 34
  • 79 (a)
(Gallus gallus)
Aves ZCRB1 33 34
  • 81.79 (n)
(Anolis carolinensis)
Reptilia ZCRB1 34
  • 92 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia zcrb1 33
  • 76.28 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.23452 33
(Danio rerio)
Actinopterygii zcrb1 33 34
  • 73.96 (n)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.615 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP013420 33
  • 54.4 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 50 (a)
Species where no ortholog for ZCRB1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for ZCRB1 Gene

Gene Tree for ZCRB1 (if available)
Gene Tree for ZCRB1 (if available)

Paralogs for ZCRB1 Gene

(4) SIMAP similar genes for ZCRB1 Gene using alignment to 4 proteins: Pseudogenes for ZCRB1 Gene

genes like me logo Genes that share paralogs with ZCRB1: view

No data available for Paralogs for ZCRB1 Gene

Variants for ZCRB1 Gene

Sequence variations from dbSNP and Humsavar for ZCRB1 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs1000169360 -- 42,316,690(+) TGAAC(C/T)GTGAC intron-variant
rs1000189452 -- 42,319,570(+) TCTTC(C/T)ACCTC intron-variant
rs1000258868 -- 42,311,935(+) AAAAA(A/C)CAAAC downstream-variant-500B
rs1000311313 -- 42,311,748(+) ACAAA(A/T)ATTAG downstream-variant-500B
rs1000628681 -- 42,324,894(+) CAGAC(A/G)GAACC intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for ZCRB1 Gene

Variant ID Type Subtype PubMed ID
nsv1048971 CNV gain 25217958

Variation tolerance for ZCRB1 Gene

Residual Variation Intolerance Score: 45.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.63; 13.48% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for ZCRB1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZCRB1 Gene

Disorders for ZCRB1 Gene

Relevant External Links for ZCRB1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for ZCRB1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ZCRB1 Gene

Publications for ZCRB1 Gene

  1. Isolation, expression, and characterization of the human ZCRB1 gene mapped to 12q12. (PMID: 16959469) Wang H … Sato K (Genomics 2007) 2 3 4 22 60
  2. The human 18S U11/U12 snRNP contains a set of novel proteins not found in the U2-dependent spliceosome. (PMID: 15146077) Will CL … Lührmann R (RNA (New York, N.Y.) 2004) 2 3 4 60
  3. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen JV … Mann M (Cell 2006) 3 4 60
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 60
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 60

Products for ZCRB1 Gene

Sources for ZCRB1 Gene

Loading form....