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

SCRT2 Gene

protein-coding   GIFtS: 39
GCID: GC20M000642

scratch homolog 2, zinc finger protein (Drosophila)

(Previous names: scratch (drosophila homolog) 2, zinc finger protein )
 Explore 1 disease affiliated with
SCRT2 via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for SCRT2    

Aliases
for SCRT2 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Scratch Homolog 2, Zinc Finger Protein (Drosophila)1 2
ZNF898B1 2
Scratch Homolog 2 Zinc Finger Protein2 3
Scratch (Drosophila Homolog) 2, Zinc Finger Protein1
Scratch 2 Protein2
Transcriptional Repressor Scratch 22

External Ids:    HGNC: 159521   Entrez Gene: 855082   Ensembl: ENSG000002153977   UniProtKB: Q9NQ033   

Export aliases for SCRT2 gene to outside databases

Previous GC identifers: GC20M000632 GC20M000592 GC20M000639 GC20M000576 GC20M000591 GC20M000593


Summaries
for SCRT2 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
UniProtKB/Swiss-Prot: SCRT2_HUMAN, Q9NQ03
Function: May be involved in transcriptional regulation




Genomic Views
for SCRT2 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_000020.10  NC_018931.1  NT_011387.8  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SCRT2 gene promoter:
         USF1   USF2   USF-1:USF-2   Nkx2-5   Tal-1beta   YY1   Arnt   USF-1   ITF-2   RSRFC4   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: SCRT2 promoter sequence
   Search SABiosciences Chromatin IP Primers for SCRT2

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SCRT2


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

Entrez Gene cytogenetic band: 20p13   Ensembl cytogenetic band:  20p13   HGNC cytogenetic band: 20p13

SCRT2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SCRT2 gene location

GeneLoc information about chromosome 20         GeneLoc Exon Structure

GeneLoc location for GC20M000642:  view genomic region     (about GC identifiers)

Start:
 642,240 bp from pter      End:
 656,825 bp from pter
Size:
 14,586 bases      Orientation:
 minus strand

Proteins
for SCRT2 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: SCRT2_HUMAN, Q9NQ03 (See protein sequence)
Recommended Name: Transcriptional repressor scratch 2  
Size: 307 amino acids; 32584 Da
Subcellular location: Nucleus (Potential)

Explore the universe of human proteins at neXtProt for SCRT2: NX_Q9NQ03

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9NQ03

    • SCRT2 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_149120.1  
    ENSEMBL proteins: 
     ENSP00000246104  

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    Uscn Proteins for SCRT2

    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000790nuclear chromatin ISS--


    SCRT2 for ontologies           About GeneDecksing



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    Protein Domains /
    Families
    for SCRT2 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    SCRT2 for domains           About GeneDecksing

    3 InterPro domains/families:
     IPR015880 Znf_C2H2-like
     IPR013087 Znf_C2H2/integrase_DNA-bd
     IPR007087 Znf_C2H2

    Graphical View of Domain Structure for InterPro Entry Q9NQ03

    ProtoNet protein and cluster: Q9NQ03

    UniProtKB/Swiss-Prot: SCRT2_HUMAN, Q9NQ03
    Similarity: Belongs to the snail C2H2-type zinc-finger protein family
    Similarity: Contains 5 C2H2-type zinc fingers


    Function
    for SCRT2 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: SCRT2_HUMAN, Q9NQ03
    Function: May be involved in transcriptional regulation

    miRNA
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    Inhib. RNA
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    In Situ Assay
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    Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001078RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription IC--
    GO:0003677DNA binding IEA--
    GO:0008270zinc ion binding IEA--


    SCRT2 for ontologies           About GeneDecksing


    1 GenomeRNAi human phenotype for SCRT2:
     Decreased viability with pacli 


    Pathways & Interactions
    for SCRT2 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 SCRT2

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000122negative regulation of transcription from RNA polymerase II promoter ISS--
    GO:0043066negative regulation of apoptotic process ISS--


    SCRT2 for ontologies           About GeneDecksing



    Drugs & Compounds
    for SCRT2 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 SCRT2
    Search CenterWatch for drugs/clinical trials and news about SCRT2 

    Transcripts
    for SCRT2 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,
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    About This Section
    REFSEQ mRNAs for SCRT2 gene: 
    NM_033129.3  

    Unigene Cluster for SCRT2:

    Scratch homolog 2, zinc finger protein (Drosophila)
    Hs.355284  [show with all ESTs]
    Unigene Representative Sequence: AY129025
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000246104(uc002wec.3)

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    hsa-miR-520e hsa-miR-188-5p hsa-miR-631 hsa-miR-106a hsa-miR-485-3p hsa-miR-4267 hsa-miR-93 hsa-miR-3649
    SwitchGear 3'UTR luciferase reporter plasmid: SCRT2 3' UTR sequence
    Inhib. RNA
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    Clone
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    Additional cDNA sequence: AY129025.1 

    1 DOTS entry:

    DT.97835692 

    24/234 AceView cDNA sequences (see all 234):

    AI087110 BG496225 CD742692 AI916205 BQ226886 BX099959 AW173108 AI949423 
    CA307507 AI650242 NM_080725 AI094657 AW079427 BU162147 BM772435 AA707264 
    H18986 F02022 BQ233189 AI192274 CD366523 BU190639 BF448139 BM726024 

    GeneLoc Exon Structure


    Expression
    for SCRT2 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

    SCRT2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: CTAAGCCTTT

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

    SCRT2 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    2 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    EyeInner Nuclear LayernGnG Amacrine CellsAmacrine, Retina
    BrainCerebral CortexBrain
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See SCRT2 Protein Expression from SPIRE MOPED and PaxDB
    SOURCE GeneReport for Unigene cluster: Hs.355284
        SABiosciences Expression via Pathway-Focused PCR Array including SCRT2: 
              Nitric Oxide Signaling Pathway in human mouse rat

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    In Situ
    Assay Products:     
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    Orthologs
    for SCRT2 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 animals.

    Orthologs for SCRT2 gene from 5/17 species (see all 17)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    chicken
    (Gallus gallus)    		 Aves SCRT21 scratch homolog 2, zinc finger protein (Drosophila) 78.31(n)
    76.95(a)    		   100379662  NM_001173522.1  NP_001166993.1 
    lizard
    (Anolis carolinensis)    		 Reptilia SCRT26
    		 --
    		 76(a)
    		 1 ↔ 1
    		 AAWZ02038123(6144-6803)
    zebrafish
    (Danio rerio)    		 Actinopterygii scrt21 scratch homolog 2, zinc finger protein (Drosophila) 66.32(n)
    61.19(a)    		   325372  NM_213637.1  NP_998802.1 
    fruit fly
    (Drosophila melanogaster)    		 Insecta CG126053
    scrt1    		 scratch1 78(a)
    (best of 3)3
    69.7(n)1
    69.52(a)1    		   64A13
    384691  NM_079187.41  NP_523911.21 
    worm
    (Caenorhabditis elegans)    		 Secernentea K02D7.23 zinc finger protein 56(a)   IV(311184-312352)   --


    ENSEMBL Gene Tree for SCRT2 (if available)
    TreeFam Gene Tree for SCRT2 (if available) 

    Paralogs
    for SCRT2 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SCRT2 gene
    SCRT12  SNAI12  SNAI22  SNAI32  
    18/34 SIMAP similar genes for SCRT2 using alignment to 1 protein entry:     SCRT2_HUMAN(see all similar genes):
    SNAI1    kr-znf3    DKFZp434J0650    ZNF78L1    ZNF808    SCRT1
    A-328A3.4    ZNF    ZFS-4    ZFS-5    ZNF22    ZNF234
    ZNF55    ZNF697    ZFP41    ZNF589    ZNF600    ZNF72

    SCRT2 for paralogs           About GeneDecksing



    Genomic Variants
    for SCRT2 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

    10/289 NCBI SNPs in SCRT2 are shown (see all 289)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 20 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs1426580621,2
    		--641851(+) ACTGGA/CTGTCA 1 -- int10--------
    rs60537831,2
    		C,F,A,H,--641893(+) TTGGTG/AGGTGT 1 -- int125Minor allele frequency- A:0.32NS EA NA WA CSA 2527
    rs60853171,2
    		C--642041(+) ATTAAG/AGATTG 1 -- int12Minor allele frequency- A:0.00NA 4
    rs1835697581,2
    		--642085(+) CCTTGA/GGGCTG 1 -- int10--------
    rs747775481,2
    		--642144(+) ATGGAG/TTGGAA 1 -- int10--------
    rs797852291,2
    		F,--642301(+) AGGTGG/AGGAAG 1 -- ut311Minor allele frequency- A:0.02EA 120
    rs1882246571,2
    		--642491(+) CCTCCC/TTTCCC 1 -- ut310--------
    rs757404701,2
    		C,F,--642642(+) TGCCCC/ACAAGC 1 -- ut311Minor allele frequency- A:0.05WA 118
    rs766271811,2
    		F,--642650(+) AGCTGG/CCTGCA 1 -- ut311Minor allele frequency- C:0.04EA 120
    rs1389246181,2
    		--642704(+) GGCCCA/GTGCGC 1 -- ut310--------

    HapMap Linkage Disequilibrium report for SCRT2 (642240 - 656825 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for SCRT2: --

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    Disorders / Diseases
    for SCRT2 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
    SCRT2 for disorders           About GeneDecksing

    1 disease for SCRT2:    About MalaCards
    neuronitis


    Export disorders for SCRT2 gene to outside databases

    Publications
    for SCRT2 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 SCRT2 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with SCRT2)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Mammalian scratch: a neural-specific snail family transcriptional repressor. (PubMed id 11274425)1, 3 Nakakura E.K.... Ball D.W. (2001)
    2. The DNA sequence and comparative analysis of human chromosome 20. (PubMed id 11780052)1, 2 Deloukas P....Rogers J. (2001)
    3. Hepatitis C virus core protein interacts with 14-3-3 protein and activates the kinase Raf-1. (PubMed id )2 Aoki H.... Hino O. (2000)

    External Searches for SCRT2 gene

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  
      Query String
    		PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    Genome Databases showing SCRT2 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 85508 HGNC: 15952 AceView: SCRT2andC20orf139 Ensembl:ENSG00000215397 euGenes: HUgn85508
    ECgene: SCRT2 H-InvDB: SCRT2

    Other Databases showing SCRT2 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing SCRT2 gene

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for SCRT2 Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for SCRT2 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for SCRT2 gene:
    Search GeneIP for patents involving SCRT2

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    Products
    for SCRT2 gene

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    Advanced Cell Diagnostics
    About This Section

     
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