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

SAPCD2 Gene

protein-coding   GIFtS: 40
GCID: GC09M139957

suppressor APC domain containing 2

(Previous name: chromosome 9 open reading frame 140 )
(Previous symbol: C9orf140)
 Explore 2 diseases affiliated with
SAPCD2 via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for SAPCD2    

Aliases
for SAPCD2 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Suppressor APC Domain Containing 21 2     Chromosome 9 Open Reading Frame 1401
C9orf1401 2 3 5     2010317E24Rik2
P42.35     Protein C9orf1402
Tumor Specificity And Mitosis Phase-Dependent Expression Protein2 3     Suppressor APC Domain-Containing Protein 22
TS/MDEP2 3     P42.35

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

Export aliases for SAPCD2 gene to outside databases


Summaries
for SAPCD2 gene

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

Genomic Views
for SAPCD2 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_000009.11  NC_018920.1  NT_024000.16  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for SAPCD2
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: SAPCD2 promoter sequence
   Search SABiosciences Chromatin IP Primers for SAPCD2

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays 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

Proteins
for SAPCD2 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: SAPC2_HUMAN, Q86UD0 (See protein sequence)
Recommended Name: Suppressor APC domain-containing protein 2  
Size: 394 amino acids; 42637 Da
Subcellular location: Cytoplasm. Nucleus
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

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q86UD0

    • SAPCD2 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_848543.2  
    ENSEMBL proteins: 
     ENSP00000386348  

    Human Recombinant Protein Products: 
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    Uscn Proteins for SAPCD2

    Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view):    About this table

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


    SAPCD2 for ontologies           About GeneDecksing



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    Uscn ELISAs and CLIAs for SAPCD2

    Protein Domains /
    Families
    for SAPCD2 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    SAPCD2 for domains           About GeneDecksing

    2 InterPro domains/families:
     IPR026828 Suppressor_APCD_1/2
     IPR026831 APC_dom

    Graphical View of Domain Structure for InterPro Entry Q86UD0

    ProtoNet protein and cluster: Q86UD0


    Function
    for SAPCD2 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
    miRNA
    Products:            		 OriGene 3'-UTR Clone: SAPCD2
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    Inhib. RNA
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    OriGene shRNA RFP: SAPCD2
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    In Situ Assay
    Products:       
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    Animal Models:
         Mouse knock-out Sapcd2tm1Sia for SAPCD2
         2 MGI mutant phenotypes (inferred from 1 allele) (MGI details for Sapcd2):
     nervous system  normal 

    SAPCD2 for phenotypes           About GeneDecksing


    Pathways & Interactions
    for SAPCD2 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 SAPCD2

    5/7 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

    Drugs & Compounds
    for SAPCD2 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 SAPCD2
    Search CenterWatch for drugs/clinical trials and news about SAPCD2 / SAPC2 

    Transcripts
    for SAPCD2 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 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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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SAPCD2 (see all 4)
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    Clone
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    Primer
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    Additional cDNA 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 

    24/168 AceView cDNA sequences (see all 168):

    BM809892 BM904066 AA636031 BM827481 AI243919 F10267 BQ899016 F03242 
    BC042162 BF063938 BQ028121 BE301694 CK430665 BG338680 AI474346 F09160 
    BE301440 NM_178448 AW083578 CA417549 BC048267 BU621464 AL577745 AI739345 

    GeneLoc Exon Structure


    Expression
    for SAPCD2 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

    SAPCD2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: CAGACCCTGC

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

    SAPCD2 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)
    BoneZeugopod Epiphyseal EndBone
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See SAPCD2 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SAPCD2

    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

        SABiosciences Custom PCR Arrays for SAPCD2
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    In Situ
    Assay Products:     
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SAPCD2

    Orthologs
    for SAPCD2 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 SAPCD2 gene from 6/17 species (see all 17)    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    		 82.18(n)1
    81.33(a)1    		   2 (17.20 cM)5
    720801  NM_001081085.11  NP_001074554.11 
     253723305 
    chicken
    (Gallus gallus)    		 Aves C17H9orf1401 chromosome 17 open reading frame, human C9orf140 65.76(n)
    59.35(a)    		   770416  XM_001232159.2  XP_001232160.2 
    lizard
    (Anolis carolinensis)    		 Reptilia C9orf1406
    		 --
    		 53(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 
    zebrafish
    (Danio rerio)    		 Actinopterygii sapcd21 suppressor APC domain containing 2 57.51(n)
    50.71(a)    		   405847  NM_212911.1  NP_998076.1 
    fruit fly
    (Drosophila melanogaster)    		 Insecta CG38801 CG3880 49.16(n)
    37.39(a)    		   37957  NM_138118.2  NP_611962.2 


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

    Paralogs
    for SAPCD2 gene

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

    SAPCD2 for paralogs           About GeneDecksing


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


    Genomic Variants
    for SAPCD2 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

    10/185 NCBI SNPs in SAPCD2 are shown (see all 185)     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
    		--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
    		--139956764(+) TTTCT-/TTCTTTTT 1 -- ut310--------
    rs1821989991,2
    		--139956868(+) CCCGGC/GTGAGA 1 -- ut310--------
    rs108701751,2
    		C,A,--139956954(+) TCAACT/CGGGGA 1 -- ut31 ese33Minor allele frequency- C:0.29NA EA 242

    HapMap Linkage Disequilibrium report for SAPCD2 (139956579 - 139965040 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for SAPCD2: --

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    Disorders / Diseases
    for SAPCD2 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
    SAPCD2 for disorders           About GeneDecksing

    OMIM gene information: 612057    OMIM disorders: --

    2 diseases for SAPCD2:    About MalaCards
    gastric cancer    carcinoma


    Export disorders for SAPCD2 gene to outside databases

    Publications
    for SAPCD2 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 SAPCD2 gene integrated from 9 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. (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. (2002)
    3. 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. (2011)
    4. Systematic analysis of human protein complexes identi fies chromosome segregation proteins. (PubMed id 20360068)1 Hutchins J.R....Peters J.M. (2010)
    5. Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (2008)
    6. DNA sequence and analysis of human chromosome 9. (PubMed id 15164053)2 Humphray S.J.... Dunham I. (2004)
    7. 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. (2004)

    External Searches for SAPCD2 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 SAPCD2 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 89958 HGNC: 28055 AceView: C9orf140 Ensembl:ENSG00000186193 euGenes: HUgn89958
    ECgene: SAPCD2 H-InvDB: SAPCD2

    Other Databases showing SAPCD2 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing SAPCD2 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 SAPCD2 Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for SAPCD2 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		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



    Products
    for SAPCD2 gene

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    Advanced Cell Diagnostics
    About This Section

     
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    GeneCards Homepage - Last full update: 18 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 27 Apr 2013

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    von Willebrand factor
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