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SCAND1 Gene

protein-coding   GIFtS: 54
GCID: GC20M034542

SCAN Domain Containing 1

(Previous name: SCAN domain-containing 1)
  Search for SCAND1
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
SCAN Domain Containing 11 2
SDP12 3 5
SCAN Domain-Containing 11 2
RAZ12 5
SCAN Domain-Containing Protein 12
SCAN-Related Protein RAZ12

External Ids:    HGNC: 105661   Entrez Gene: 512822   Ensembl: ENSG000001712227   OMIM: 6104165   UniProtKB: P570863   

Export aliases for SCAND1 gene to outside databases

Previous GC identifers: GC20M034231 GC20M035209 GC20M035256 GC20M034004 GC20M031319


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for SCAND1 Gene:
This gene encodes a SCAN box domain-containing protein. The SCAN domain is a highly conserved, leucine-rich motif
of approximately 60 aa originally found within a subfamily of zinc finger proteins. This gene belongs to a family
of genes that encode an isolated SCAN domain, but no zinc finger motif. This protein binds to and may regulate
the function of the transcription factor myeloid zinc finger 1B. Alternate splicing results in multiple
transcript variants.(provided by RefSeq, Jan 2011)

GeneCards Summary for SCAND1 Gene:
SCAND1 (SCAN domain containing 1) is a protein-coding gene. GO annotations related to this gene include transcription coactivator activity and sequence-specific DNA binding transcription factor activity. An important paralog of this gene is ZNF449.

UniProtKB/Swiss-Prot: SCND1_HUMAN, P57086
Function: May regulate transcriptional activity

Gene Wiki entry for SCAND1 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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000020.10  NC_018931.2  NT_011362.11  
Regulatory elements:
   Regulatory transcription factor binding sites in the SCAND1 gene promoter:
         p300   MyoD   Olf-1   LUN-1   STAT5A   Cdc5   c-Ets-1   GATA-1   S8   Zic3   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): SCAND1 promoter sequence
   Search Chromatin IP Primers for SCAND1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SCAND1


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

Entrez Gene cytogenetic band: 20q11.1-q11.23   Ensembl cytogenetic band:  20q11.23   HGNC cytogenetic band: 20q11.1-q11.23

SCAND1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SCAND1 gene location

GeneLoc information about chromosome 20         GeneLoc Exon Structure

GeneLoc location for GC20M034542:  view genomic region     (about GC identifiers)

Start:
34,541,539 bp from pter      End:
34,547,394 bp from pter
Size:
5,856 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: SCND1_HUMAN, P57086 (See protein sequence)
Recommended Name: SCAN domain-containing protein 1  
Size: 179 amino acids; 19082 Da
Subunit: Interacts with ZNF202
Secondary accessions: Q6IAG7

Explore the universe of human proteins at neXtProt for SCAND1: NX_P57086

Explore proteomics data for SCAND1 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys144
  • Modification sites at PhosphoSitePlus

  • See SCAND1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (2 alternative transcripts): 
    NP_057642.1  NP_361012.2  

    ENSEMBL proteins: 
     ENSP00000301995   ENSP00000363103  

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    Search eBioscience for ELISAs for SCAND1 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    3 InterPro protein domains:
     IPR008916 Retrov_capsid_C
     IPR003309 Tscrpt_reg_SCAN
     IPR027775 C2H2_Znf_fam

    Graphical View of Domain Structure for InterPro Entry P57086

    ProtoNet protein and cluster: P57086

    1 Blocks protein domain: IPB003309 Transcriptional regulator SCAN

    UniProtKB/Swiss-Prot: SCND1_HUMAN, P57086
    Similarity: Contains 1 SCAN box domain


    Find genes that share domains with SCAND1           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SCND1_HUMAN, P57086
    Function: May regulate transcriptional activity

         Gene Ontology (GO): 4 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000981sequence-specific DNA binding RNA polymerase II transcription factor activity IBA--
    GO:0003700sequence-specific DNA binding transcription factor activity ISS--
    GO:0003713transcription coactivator activity IBA--
    GO:0042802identical protein binding ISS--
         
    Find genes that share ontologies with SCAND1           About GenesLikeMe


    Phenotypes:
         1 GenomeRNAi human phenotype for SCAND1:
     Upregulation of Wnt/beta-caten 

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for SCAND1
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    Browse Sino Biological Human cDNA Clones
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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    SCND1_HUMAN, P57086: Nucleus (Potential)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus4
    cytosol2
    cytoskeleton1

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--

    Find genes that share ontologies with SCAND1           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, 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 Apr 2014 via Entrez Gene).
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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SCAND1
    Interactions:

        GeneGlobe Interaction Network for SCAND1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 13)

    Selected Interacting proteins for SCAND1 (P570862, 3 ENSP000003019954) via UniProtKB, MINT, STRING, and/or I2D (see all 31)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    LINC00921O149782, 3MINT-67660 I2D: score=4 
    ZSCAN20P170402, 3MINT-66729 I2D: score=4 
    EHMT2Q96KQ73I2D: score=1 
    ENSG00000206376Q96KQ73I2D: score=1 
    ENSG00000227333Q96KQ73I2D: score=1 
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    Gene Ontology (GO): 3 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006355regulation of transcription, DNA-templated ----
    GO:0006357regulation of transcription from RNA polymerase II promoter IBA--
    GO:0006366transcription from RNA polymerase II promoter IBA--

    Find genes that share ontologies with SCAND1           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for SCAND1 (SCND1)



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 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,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for SCAND1 gene (2 alternative transcripts): 
    NM_016558.3  NM_033630.2  

    Unigene Cluster for SCAND1:

    SCAN domain containing 1
    Hs.584909  [show with all ESTs]
    Unigene Representative Sequence: BC041022
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000305978(uc002xen.2 uc021wct.1) ENST00000373991(uc002xep.3)

    miRNA
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SCAND1
    Primer
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      QuantiTect SYBR Green Assays in human, mouse, rat SCAND1
      QuantiFast Probe-based Assays in human, mouse, rat SCAND1

    Additional mRNA sequence: 

    AF204271.1 AF207829.1 BC000785.2 BC036709.2 BC041022.1 CR457188.1 

    11 DOTS entries:

    DT.454410  DT.100789185  DT.100037558  DT.120832199  DT.120832145  DT.100685255  DT.120832123  DT.120832133 
    DT.410463  DT.92062250  DT.92435083 

    Selected AceView cDNA sequences (see all 311):

    BU177896 BI857730 AI589648 BG111883 NM_033630 AW016008 BE395238 AW055238 
    AI401704 BI761689 AI953511 BI858277 BM983212 BE729045 BU739769 AI365044 
    AI804660 AI589563 AF207829 AI760473 BM760461 AW204096 BM844036 CD674145 

    GeneLoc Exon Structure


    (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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    SCAND1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: ATCGGGCCCG
    SCAND1 Expression
    About this image

    SCAND1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    SCAND1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.584909
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    In Situ
    Assay Products:
     

     
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    (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)
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    This gene was present in the common ancestor of chordates.

    Orthologs for SCAND1 gene from Selected species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Scand11 , 5 SCAN domain-containing 11, 5 80.41(n)1
    79.39(a)1
      2 (77.39 cM)5
    190181  NM_020255.31  NP_064651.21 
     1563118475 
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    (see all 6)
    Uncharacterized protein
    (see all 6)
    9(a)
    8(a)
    (see all 6)
    many ↔ many
    many ↔ many
    (see all 6)
    2(197009814-197018018)
    2(197062880-197068995)


    ENSEMBL Gene Tree for SCAND1 (if available)
    TreeFam Gene Tree for SCAND1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for SCAND1 gene
    ZNF4492  
    Selected SIMAP similar genes for SCAND1 using alignment to 2 protein entries:     SCND1_HUMAN (see all proteins) (see all similar genes):
    RAZ1    ZSCAN25    ZSCAN29    ZKSCAN5    ZNF202    ZNF449
    ZSCAN30    DKFZp451F083    ZNF75D    ZKSCAN8    SCAND3    ZNF397
    ZSCAN26    ZNF24    ZNF197    ZNF213    ZNF396    ZSCAN20

    Find genes that share paralogs with SCAND1           About GenesLikeMe



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for SCAND1 (see all 89)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 20 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1510509581,2
    --34541110(+) GCAAGA/GAAGTT 2 -- ds50010--------
    rs1831068701,2
    --34541118(+) GTTGAC/GCAAGC 2 -- ds50010--------
    rs358921921,2
    C--34541165(+) ATCTCTG/-TGAAG 2 -- ds50011Minor allele frequency- -:0.50NA 2
    rs1157256081,2
    F--34541184(+) GTAAAC/TACTTC 2 -- ds50011Minor allele frequency- T:0.01WA 118
    rs126254211,2
    C,F,H--34541290(+) TAAGTG/AAGCAT 2 -- ds50018Minor allele frequency- A:0.01NS EA NA 754
    rs762204081,2
    F--34541345(+) CTTGGG/AAGCCC 2 -- ds50011Minor allele frequency- A:0.03WA 118
    rs1179971081,2
    F--34541390(+) ACCTAG/CGTTCA 2 -- ds50011Minor allele frequency- C:0.01EA 120
    rs31806801,2
    C--34541547(-) CAGCGC/ACTGTG 2 -- ut312Minor allele frequency- A:0.00NA 4
    rs115382351,2
    C--34541635(+) CAGAGA/CGCCCG 2 -- ut310--------
    rs61196821,2
    C,F--34541644(+) CGGCCC/TTGGCC 2 -- ut31 ese31Minor allele frequency- T:0.50CSA 2

    HapMap Linkage Disequilibrium report for SCAND1 (34541539 - 34547394 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 5 variations for SCAND1:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv833964CNV Loss17160897
    nsv912863CNV Loss21882294
    nsv912864CNV Loss21882294
    nsv526188CNV Gain19592680
    nsv522947CNV Gain19592680

    Site Specific Mutation Identification with PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers for resequencing SCAND1
    DNA2.0 Custom Variant and Variant Library Synthesis for SCAND1

    (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.)
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    OMIM gene information: 610416    OMIM disorders: --


    Find genes that share disorders with SCAND1           About GenesLikeMe

    Genetic Association Database (GAD): SCAND1
    Human Genome Epidemiology (HuGE) Navigator: SCAND1 (1 document)

    Export disorders for SCAND1 gene to outside databases

    (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)
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    PubMed articles for SCAND1 gene, integrated from 10 sources (see all 19):
    (articles sorted by number of sources associating them with SCAND1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The SCAN domain mediates selective oligomerization. (PubMed id 10747874)1, 2, 3 Schumacher C.... Wagner S. (J. Biol. Chem. 2000)
    2. Identification of a novel SCAN box-related protein that interacts with MZF1B. The leucine-rich SCAN box mediates hetero- and homoprotein associations. (PubMed id 10777584)1, 3, 9 Sander T.L.... Morris J.F. (J. Biol. Chem. 2000)
    3. Multiple genetic variants along candidate pathways influence plasma high-density lipoprotein cholesterol concentrations. (PubMed id 18660489)1, 4 Lu Y....Boer J.M. (J. Lipid Res. 2008)
    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. (Genome Res. 2004)
    5. SDP1 is a peroxisome-proliferator-activated receptor gamma 2 co-activator that binds through its SCAN domain. (PubMed id 12444922)1, 3 Babb R. and Bowen B.R. (Biochem. J. 2003)
    6. The DNA sequence and comparative analysis of human chromosome 20. (PubMed id 11780052)1, 2 Deloukas P....Rogers J. (Nature 2001)
    7. Characterization of the SCAN box encoding RAZ1 gene: analysis of cDNA transcripts, expression, and cellular localization. (PubMed id 12383503)1, 9 Sander T.L. and Morris J.F. (Gene 2002)
    8. Pathway Analysis of ChIP-Seq-Based NRF1 Target Genes Suggests a Logical Hypothesis of their Involvement in the Pathogenesis of Neurodegenerative Diseases. (PubMed id 24250222)1 Satoh J....Yamamoto Y. (Gene Regul Syst Bio 2013)
    9. A directed protein interaction network for investigating intracellular signal transduction. (PubMed id 21900206)1 Vinayagam A....Wanker E.E. (Sci Signal 2011)
    10. Mass spectrometric analysis of lysine ubiquitylation reveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (amp 2011)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 51282 HGNC: 10566 AceView: SCAND1 Ensembl:ENSG00000171222 euGenes: HUgn51282
    ECgene: SCAND1 H-InvDB: SCAND1

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for SCAND1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for SCAND1 gene:
    Search GeneIP for patents involving SCAND1

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



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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