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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

ZCRB1 Gene

protein-coding   GIFtS: 47
GCID: GC12M042705

zinc finger CCHC-type and RNA binding motif 1
 Explore 1 disease affiliated with
ZCRB1 via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for ZCRB1    

Aliases
for ZCRB1 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Zinc Finger CCHC-Type And RNA Binding Motif 11 2     U11/U12-31K2 3
MADP11 2 5     U11/U12 Small Nuclear Ribonucleoprotein 31 KDa Protein2 3
MADP-11 2     U11/U12 SnRNP 31 KDa Protein2 3
RBM361 2     U11/U12 SnRNP 31K2
SNRNP311 2     Zinc Finger CCHC-Type And RNA-Binding Motif-Containing Protein 12
ZCCHC191 2     

External Ids:    HGNC: 296201   Entrez Gene: 854372   Ensembl: ENSG000001391687   OMIM: 6107505   UniProtKB: Q8TBF43   

Export aliases for ZCRB1 gene to outside databases

Previous GC identifers: GC12M040993 GC12M039732


Summaries
for ZCRB1 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
Entrez Gene summary for ZCRB1:
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)




Genomic Views
for ZCRB1 gene

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000012.11  NC_018923.1  NT_029419.12  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the ZCRB1 gene promoter:
         HFH-3   AML1a   Pbx1a   FOXD3   Cdc5   HEN1   FOXI1   PPAR-gamma1   Ik-2   PPAR-gamma2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: ZCRB1 promoter sequence
   Search SABiosciences Chromatin IP Primers for ZCRB1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ZCRB1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 12q12   Ensembl cytogenetic band:  12q12   HGNC cytogenetic band: 12q12

ZCRB1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZCRB1 gene location

GeneLoc information about chromosome 12         GeneLoc Exon Structure

GeneLoc location for GC12M042705:  view genomic region     (about GC identifiers)

Start:
 42,705,880 bp from pter      End:
 42,719,932 bp from pter
Size:
 14,053 bases      Orientation:
 minus strand

Proteins
for ZCRB1 gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
UniProtKB/Swiss-Prot: ZCRB1_HUMAN, Q8TBF4 (See protein sequence)
Recommended Name: Zinc finger CCHC-type and RNA-binding motif-containing protein 1  
Size: 217 amino acids; 24592 Da
Subunit: Component of the U11/U12 snRNPs that are part of the U12-type spliceosome
Subcellular location: Nucleus, nucleoplasm
1 PDB 3D structure from and Proteopedia for ZCRB1:
2E5H (3D)    
Secondary accessions: Q6PJX0 Q96TA6

Explore the universe of human proteins at neXtProt for ZCRB1: NX_Q8TBF4

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q8TBF4

    • ZCRB1 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_149105.3  
    ENSEMBL proteins: 
     ENSP00000266529   ENSP00000446732   ENSP00000448780  

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    Uscn Proteins for ZCRB1

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005654nucleoplasm IEA--
    GO:0005689U12-type spliceosomal complex IDA15146077


    ZCRB1 for ontologies           About GeneDecksing



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    Protein Domains /
    Families
    for ZCRB1 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    ZCRB1 for domains           About GeneDecksing

    3 InterPro domains/families:
     IPR000504 RRM_dom
     IPR012677 Nucleotide-bd_a/b_plait
     IPR001878 Znf_CCHC

    Graphical View of Domain Structure for InterPro Entry Q8TBF4

    ProtoNet protein and cluster: Q8TBF4

    2 Blocks protein families:
    IPB000504 RNA-binding region RNP-1 (RNA recognition motif)
    IPB001878 C2HC-type zinc-finger signature


    UniProtKB/Swiss-Prot: ZCRB1_HUMAN, Q8TBF4
    Similarity: Contains 1 CCHC-type zinc finger
    Similarity: Contains 1 RRM (RNA recognition motif) domain


    Function
    for ZCRB1 gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    Function Summary:

         UniProtKB/Swiss-Prot: ZCRB1_HUMAN, Q8TBF4
    Induction: Up-regulated by morphine. Down-regulated at 30-36 degrees Celsius while it is up-regulated at 39 degrees
    Celsius

    miRNA
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    1 QIAGEN miScript miRNA Assays for microRNA that regulate ZCRB1:
    hsa-miR-9*
    SwitchGear 3'UTR luciferase reporter plasmid: ZCRB1 3' UTR sequence
    Inhib. RNA
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    Gene Editing
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    Clone
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    In Situ Assay
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    Gene Ontology (GO): 4 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000166nucleotide binding IEA--
    GO:0003676nucleic acid binding ----
    GO:0003723RNA binding IEA--
    GO:0008270zinc ion binding IEA--


    ZCRB1 for ontologies           About GeneDecksing



    Pathways & Interactions
    for ZCRB1 gene

    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for ZCRB1

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    1 Interacting protein for ZCRB1 (ENSP000002665294) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ELAVL1ENSP000003852694STRING: ENSP00000385269
    About this table

    Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006397mRNA processing IEA--
    GO:0008380RNA splicing IC15146077


    ZCRB1 for ontologies           About GeneDecksing



    Drugs & Compounds
    for ZCRB1 gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for ZCRB1
    Search CenterWatch for drugs/clinical trials and news about ZCRB1 

    Transcripts
    for ZCRB1 gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section
    REFSEQ mRNAs for ZCRB1 gene: 
    NM_033114.3  

    Unigene Cluster for ZCRB1:

    Zinc finger CCHC-type and RNA binding motif 1
    Hs.496279  [show with all ESTs]
    Unigene Representative Sequence: NM_033114
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000266529(uc001rmz.3) ENST00000552673 ENST00000552235 ENST00000548022
    ENST00000551102

    miRNA
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    hsa-miR-9*
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    Inhib. RNA
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    Clone
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    Primer
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    Additional cDNA sequence: 

    AB062361.1 AK308244.1 BC005099.1 BC010177.2 BC022543.1 

    11 DOTS entries:

    DT.116810  DT.100668548  DT.100752017  DT.102835879  DT.95361981  DT.121307710  DT.75103947  DT.99932087 
    DT.102835878  DT.121192387  DT.100844153 

    24/169 AceView cDNA sequences (see all 169):

    AI129504 BU680559 AA632193 AI654840 BE263543 AI199265 BU071398 AA256306 
    BE550392 AW572084 BC005099 BM848080 AI972713 BM761533 AW337514 AW003935 
    BQ003638 AI146850 AA425036 CA423047 AI493902 AI480348 AA476732 AI096962 

    GeneLoc Exon Structure


    Expression
    for ZCRB1 gene

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    ZCRB1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: AGGACTTCTG

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image

    ZCRB1 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    1 LifeMap In Vivo Development Anatomical Compartment/Cell 
    Tissue Anatomical Compartment CellCategory (developmental path)
    KidneyCap MesenchymeCap Mesenchyme CellsKidney
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See ZCRB1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for ZCRB1

    SOURCE GeneReport for Unigene cluster: Hs.496279
        SABiosciences Custom PCR Arrays for ZCRB1
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    In Situ
    Assay Products:     
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    Orthologs
    for ZCRB1 gene

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section
    This gene was present in the common ancestor of eukaryotes.

    Orthologs for ZCRB1 gene from 8/22 species (see all 22)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    mouse
    (Mus musculus)    		 Mammalia Zcrb11 , 5 zinc finger CCHC-type and RNA binding motif 11, 5 89.25(n)1
    94.93(a)1    		   15 (47.53 cM)5
    671971  NM_026025.21  NP_080301.11 
     933860975 
    chicken
    (Gallus gallus)    		 Aves ZCRB11 zinc finger CCHC-type and RNA binding motif 1 83.95(n)
    89.81(a)    		   417791  XM_416034.3  XP_416034.1 
    lizard
    (Anolis carolinensis)    		 Reptilia ZCRB16
    		 --
    		 92(a)
    		 1 ↔ 1
    		 5(55280370-55283950)
    African clawed frog
    (Xenopus laevis)    		 Amphibia Xl.234522 Xenopus laevis transcribed sequence with moderate similarity more 77.98(n)    CF520994.1 
    zebrafish
    (Danio rerio)    		 Actinopterygii zcrb11 zinc finger CCHC-type and RNA binding motif 1 74.13(n)
    81.82(a)    		   550251  NM_001017589.1  NP_001017589.1 
    honey bee
    (Apis mellifera)    		 Insecta --
    		 --
    		 49(a)
    		 1 ↔ 1
    		 GroupUn.106(114952-116383)
    thale cress
    (Arabidopsis thaliana)    		 eudicotyledons AT3G104001 small nuclear ribonucleoprotein 31 kDa protein 50.33(n)
    51.5(a)    		   820203  NM_111875.2  NP_187651.1 
    rice
    (Oryza sativa)    		 Liliopsida Os09g05495001 hypothetical protein 49.02(n)
    63.24(a)    		   4347779  NM_001070394.1  NP_001063859.1 


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

    Paralogs
    for ZCRB1 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for ZCRB1 gene
    RBMX22  
    4 SIMAP similar genes for ZCRB1 using alignment to 4 protein entries:     ZCRB1_HUMAN (see all proteins):
    CIRBP    RBMX2    FUSIP1    SRSF7

    ZCRB1 for paralogs           About GeneDecksing


    3 Pseudogenes.org Pseudogenes for ZCRB1
    PGOHUM00000261177 PGOHUM00000249163 PGOHUM00000261803


    Genomic Variants
    for ZCRB1 gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/215 NCBI SNPs in ZCRB1 are shown (see all 215)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 12 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs1384006791,2
    		--42705469(+) CCGAGA/GCGGGT 1 -- ds50010--------
    rs111814151,2
    		C,F,A,H,--42705526(+) AACCCC/TCAACT 1 -- ds50019Minor allele frequency- T:0.18NA WA CSA EA 256
    rs748147321,2
    		C,--42705695(+) GACTTC/TGTTTC 1 -- ds50015Minor allele frequency- T:0.10WA CSA NA EA 361
    rs1439509591,2
    		--42705696(+) ACTTCA/GTTTCA 1 -- ds50010--------
    rs355928161,2
    		C,--42705738(+) AAAAAC/-AAACC 1 -- ds50011Minor allele frequency- -:0.00NA 2
    rs2018826521,2
    		--42705772(+) ATGGC-/CAAA  
                CAGAT     		1 -- ds50010--------
    rs732856101,2
    		C,--42705780(+) ACAGAT/CGGTTG 1 -- ds50012Minor allele frequency- C:0.05WA 120
    rs1426220691,2
    		C,--42705872(+) TGGAA-/ACACAAG 1 -- ds50010--------
    rs1467995821,2
    		--42705985(+) TAGTTA/GAAAAA 1 -- ut310--------
    rs1826364501,2
    		--42706020(+) AACAAC/TATAGA 1 -- ut310--------

    HapMap Linkage Disequilibrium report for ZCRB1 (42705880 - 42719932 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for ZCRB1: --

    SABiosciences Cancer Mutation PCR Assays
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    Disorders / Diseases
    for ZCRB1 gene

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    ZCRB1 for disorders           About GeneDecksing

    OMIM gene information: 610750    OMIM disorders: --

    1 disease for ZCRB1:    About MalaCards
    morphine dependence

    1 disease from the University of Copenhagen DISEASES database for ZCRB1:
    Morphine dependence

    Export disorders for ZCRB1 gene to outside databases

    Publications
    for ZCRB1 gene

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for ZCRB1 gene, integrated from 9 sources (see all 14):
    (articles sorted by number of sources associating them with ZCRB1)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Isolation, expression, and characterization of the human ZCRB1 gene mapped to 12q12. (PubMed id 16959469)1, 2, 3, 9 Wang H.... Sato K. (2007)
    2. The human 18S U11/U12 snRNP contains a set of novel proteins not found in the U2-dependent spliceosome. (PubMed id 15146077)1, 2, 3 Will C.L.... Luehrmann R. (2004)
    3. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (2006)
    4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    5. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
    6. Binding of the 5'-untranslated region of coronavirus R NA to zinc finger CCHC-type and RNA-binding motif 1 enhances viral replication a nd transcription. (PubMed id 22362731)1 Tan Y.W....Liu D.X. (2012)
    7. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (2011)
    8. Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
    9. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (2010)
    10. Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions. (PubMed id 19690332)2 Mayya V.... Han D.K. (2009)

    External Searches for ZCRB1 gene

    (in PubMed, OMIM, and NCBI Bookshelf)
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    Genome Databases showing ZCRB1 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 85437 HGNC: 29620 AceView: MADP-1 Ensembl:ENSG00000139168 euGenes: HUgn85437
    ECgene: ZCRB1 H-InvDB: ZCRB1

    Other Databases showing ZCRB1 gene

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    Specialized Databases showing ZCRB1 gene

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
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    NameDescription
    PharmGKB entry for ZCRB1 Pharmacogenomics, SNPs, Pathways

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    IP news from LifeMap Sciences, Inc.)
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    		Patent Information for ZCRB1 gene:
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