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SAPCD2 Gene

protein-coding   GIFtS: 39
GCID: GC09M139957

Suppressor APC Domain Containing 2

(Previous name: chromosome 9 open reading frame 140)
(Previous symbol: C9orf140)
  See related diseases
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
Suppressor APC Domain Containing 21 2     Chromosome 9 Open Reading Frame 1401
C9orf1401 2 3 5     2010317E24Rik2
Tumor Specificity And Mitosis Phase-Dependent Expression Protein2 3     Protein C9orf1402
TS/MDEP2 3     Suppressor APC Domain-Containing Protein 22
p42.32 3     P42.35

External Ids:    HGNC: 280551   Entrez Gene: 899582   Ensembl: ENSG000001861937   OMIM: 6120575   UniProtKB: Q86UD03   

Export aliases for SAPCD2 gene to outside databases


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for SAPCD2 Gene:
SAPCD2 (suppressor APC domain containing 2) is a protein-coding gene. Diseases associated with SAPCD2 include malaria, and colorectal cancer.


(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:
NC_000009.12  NT_008470.20  NC_018920.2  
Regulatory elements:
   Search for regulatory transcription factor binding sites for SAPCD2
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSAPCD2 promoter sequence
   Search Chromatin IP Primers for SAPCD2

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SAPCD2


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

Entrez Gene cytogenetic band: 9q34.3   Ensembl cytogenetic band:  9q34.3   HGNC cytogenetic band: 9q34.3

SAPCD2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SAPCD2 gene location

GeneLoc information about chromosome 9         GeneLoc Exon Structure

GeneLoc location for GC09M139957:  view genomic region     (about GC identifiers)

Start:
139,956,579 bp from pter      End:
139,965,040 bp from pter
Size:
8,462 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., 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: SAPC2_HUMAN, Q86UD0 (See protein sequence)
Recommended Name: Suppressor APC domain-containing protein 2  
Size: 394 amino acids; 42637 Da
Sequence caution: Sequence=AAH48267.1; Type=Erroneous initiation; Note=Translation N-terminally extended;
Sequence=AAZ39408.1; Type=Erroneous initiation; Note=Translation N-terminally extended;

Explore the universe of human proteins at neXtProt for SAPCD2: NX_Q86UD0

Explore proteomics data for SAPCD2 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See SAPCD2 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_848543.2  
    ENSEMBL proteins: 
     ENSP00000386348  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    2 InterPro protein domains:
     IPR026831 APC_dom
     IPR026828 Suppressor_APCD_1/2

    Graphical View of Domain Structure for InterPro Entry Q86UD0

    ProtoNet protein and cluster: Q86UD0


    SAPCD2 for domains           About GeneDecksing


    (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, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Phenotypes:
         2 MGI mutant phenotypes (inferred from 1 allele(MGI details for Sapcd2):
     nervous system  normal 

    SAPCD2 for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-out Sapcd2tm1Sia for SAPCD2

       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for SAPCD2
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for SAPCD2
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    miRNA
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    miRTarBase miRNAs that target SAPCD2:
    hsa-mir-221-3p (MIRT046946), hsa-mir-222-3p (MIRT046610)

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    SwitchGear 3'UTR luciferase reporter plasmidSAPCD2 3' UTR sequence
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    Browse Sino Biological Human cDNA Clones
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SAPCD2


    (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
    SAPC2_HUMAN, Q86UD0: Cytoplasm. Nucleus

    Gene Ontology (GO): 3 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005730nucleolus IDA--
    GO:0005737cytoplasm IDA--

    SAPCD2 for ontologies           About GeneDecksing


    (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 SAPCD2
    Interactions:

        Search GeneGlobe Interaction Network for SAPCD2

    Selected Interacting proteins for SAPCD2 (Q86UD03) via UniProtKB, MINT, STRING, and/or I2D (see all 7)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    BZW1Q7L1Q63I2D: score=5 
    LSM14BQ9BX403I2D: score=5 
    MED20Q9H9443I2D: score=5 
    RPL13AP404293I2D: score=5 
    RPS26P628543I2D: score=5 
    About this table

    (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 SAPCD2 (SAPC2)



    (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, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for SAPCD2 gene: 
    NM_178448.3  

    Unigene Cluster for SAPCD2:

    Suppressor APC domain containing 2
    Hs.19322  [show with all ESTs]
    Unigene Representative Sequence: DQ150361
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000409687(uc011men.2)
    miRNA
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    Inhib. RNA
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SAPCD2
    Primer
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    OriGene qPCR primer pairs and template standards for SAPCD2
    OriGene qSTAR qPCR primer pairs in human, mouse for SAPCD2
    Search Pre-validated RT2 qPCR Primer Assays in human, mouse, rat SAPCD2
      QuantiTect SYBR Green Assays in human, mouse, rat SAPCD2
      QuantiFast Probe-based Assays in human, mouse, rat SAPCD2

    Additional mRNA sequence: 

    BC009435.1 BC018901.2 BC024299.1 BC042162.1 BC048267.1 DQ150361.1 

    8 DOTS entries:

    DT.97825986  DT.312103  DT.100033223  DT.100775007  DT.100784871  DT.95277420  DT.92053227  DT.97772466 

    Selected AceView cDNA sequences (see all 168):

    CA417549 BM809892 BQ643388 BU621464 AI474346 BU838659 F09160 AI243919 
    BU172013 BE301694 BQ927636 AA364880 BF063938 CK430665 BC048267 AW083578 
    BM827481 BQ899016 AA636031 AI739345 BC042162 BQ028121 F03242 AL577745 

    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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    SAPCD2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CAGACCCTGC
    SAPCD2 Expression
    About this image


    SAPCD2 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 2) fully expand
     
     Bone (Muscoskeletal System)
             Zeugopod Epiphyseal End
     
     Neural Ectoderm (Nervous System)
             Neural Plate
    SAPCD2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    SAPCD2 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.19322

    UniProtKB/Swiss-Prot: SAPC2_HUMAN, Q86UD0
    Tissue specificity: Expressed in 5-month-old fetal tissues, including stomach, intestine, colon, liver, brain,
    lung, heart, spleen and kidney. Undetectable in non-cancerous adult tissues. Expressed in many primary gastric
    carcinoma, but almost not in adjacent normal mucosa. Expressed preferentially in M and G1 phases, compared to S
    and G2 phases

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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SAPCD2

    (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 animals.

    Orthologs for SAPCD2 gene from Selected species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Sapcd21 , 5 RIKEN cDNA 2010317E24 gene5
    suppressor APC domain containing 21
    81.93(n)1
    81.07(a)1
      2 (17.20 cM)5
    720801  NM_001081085.11  NP_001074554.11 
     253723305 
    chicken
    (Gallus gallus)
    Aves SAPCD26
    suppressor APC domain containing 2
    55(a)
    1 ↔ 1
    17(377513-388937)
    lizard
    (Anolis carolinensis)
    Reptilia SAPCD26
    suppressor APC domain containing 2
    54(a)
    1 ↔ 1
    AAWZ02036975(990-3625)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.243002 Xenopus laevis transcribed sequence with weak similarity more 76.41(n)    BJ034766.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG38806
    --
    24(a)
    1 ↔ 1
    2R(20648185-20650128)


    ENSEMBL Gene Tree for SAPCD2 (if available)
    TreeFam Gene Tree for SAPCD2 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for SAPCD2 gene

    SAPCD2 for paralogs           About GeneDecksing


    5 Pseudogenes.org Pseudogenes for SAPCD2
    PGOHUM00000232778 PGOHUM00000233295 PGOHUM00000233354 PGOHUM00000260363 PGOHUM00000261547


    (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 SAPCD2 (see all 236)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 9 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1862402661,2
    --139956184(+) AGCCAC/TTGCAC 1 -- int10--------
    rs1457265381,2
    --139956192(+) CACCCA/GACCGA 1 -- int10--------
    rs74673201,2
    C,A,H--139956356(+) caggcA/Gcccga 1 -- int12Minor allele frequency- G:0.25NA 4
    rs1448313101,2
    C--139956360(+) CGCCCA/GACACC 1 -- int10--------
    rs108701731,2
    C,F,A--139956507(+) CGCCCG/AGCCTA 1 -- int15Minor allele frequency- A:0.21NA CSA WA EA 362
    rs108701741,2
    C,F,A--139956513(+) GCCTAG/ATCTTC 1 -- int15Minor allele frequency- A:0.21NA CSA WA EA 362
    rs1908100451,2
    --139956732(+) GAATTG/TTTAAA 1 -- ut310--------
    rs2020645891,2
    C--139956764(+) TCTTT-/T/TTC 
            
    TTTTT
    3 -- ut310--------
    rs612731431,2
    C--139956766(+) TCTTT-/C/CTTT
            
    TTTTT
    2 -- ut310--------
    rs1821989991,2
    --139956868(+) CCCGGC/GTGAGA 1 -- ut310--------

    HapMap Linkage Disequilibrium report for SAPCD2 (139956579 - 139965040 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for SAPCD2: --
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing SAPCD2
    DNA2.0 Custom Variant and Variant Library Synthesis for SAPCD2

    (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: 612057    OMIM disorders: --

    2 diseases for SAPCD2:    
    About MalaCards
    malaria    colorectal cancer


    SAPCD2 for disorders           About GeneDecksing


    Export disorders for SAPCD2 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 SAPCD2 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with SAPCD2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Identification and characterization of a novel p42.3 gene as tumor- specific and mitosis phase-dependent expression in gastric cancer. (PubMed id 17525738)1, 2 Xu X.... Lu Y. (Oncogene 2007)
    2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    3. Overexpression of p42.3 promotes cell growth and tumorigenicity in hepatocellular carcinoma. (PubMed id 23704824)1 Sun W....Lu Y.Y. (World J. Gastroenterol. 2013)
    4. p42.3: a promising biomarker for the progression and prognosis of human colorectal cancer. (PubMed id 23576022)1 Yuan X.S....Hao C.Y. (J. Cancer Res. Clin. Oncol. 2013)
    5. p42.3 gene expression in gastric cancer cell and its protein regulatory network analysis. (PubMed id 23228105)1 Zhang J....Lv Y. (amp 2012)
    6. MiR-29a inhibits cell proliferation and induces cell cycle arrest through the downregulation of p42.3 in human gastric cancer. (PubMed id 21998710)1 Cui Y....Fang J.Y. (PLoS ONE 2011)
    7. Systematic analysis of human protein complexes identifies chromosome segregation proteins. (PubMed id 20360068)1 Hutchins J.R.... Peters J.M. (Science 2010)
    8. Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (amp 2008)
    9. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    10. DNA sequence and analysis of human chromosome 9. (PubMed id 15164053)2 Humphray S.J.... Dunham I. (Nature 2004)

    (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: 89958 HGNC: 28055 AceView: C9orf140 Ensembl:ENSG00000186193 euGenes: HUgn89958
    ECgene: SAPCD2 H-InvDB: SAPCD2

    (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 SAPCD2 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 SAPCD2 gene:
    Search GeneIP for patents involving SAPCD2

    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, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, 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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     Custom PCR Arrays for SAPCD2 Search Chromatin IP Primers for SAPCD2
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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014

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