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

SOGA2 Gene

protein-coding   GIFtS: 41
GCID: GC18P008708

SOGA family member 2

(Previous names: KIAA0802, coiled-coil domain containing 165 )
(Previous symbols: KIAA0802, CCDC165)
  Search for SOGA2
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Biological research products
for SOGA2    

Aliases
for SOGA2 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
SOGA Family Member 21 2
CCDC1651 2 3
KIAA08021 2 3
Coiled-Coil Domain Containing 1651 2
Coiled-Coil Domain-Containing Protein 1652 3
Protein SOGA22

External Ids:    HGNC: 291211   Entrez Gene: 232552   Ensembl: ENSG000001685027   UniProtKB: Q9Y4B53   

Export aliases for SOGA2 gene to outside databases


Summaries
for SOGA2 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
Gene Wiki entry for SOGA2 (KIAA0802)


Genomic Views
for SOGA2 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_000018.9  NC_018929.1  NT_010859.14  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for SOGA2
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for SOGA2

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SOGA2


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

Entrez Gene cytogenetic band: 18p11.22   Ensembl cytogenetic band:  18p11.22   HGNC cytogenetic band: 18p11.22

SOGA2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SOGA2 gene location

GeneLoc information about chromosome 18         GeneLoc Exon Structure

GeneLoc location for GC18P008708:  view genomic region     (about GC identifiers)

Start:
 8,705,659 bp from pter      End:
 8,832,776 bp from pter
Size:
 127,118 bases      Orientation:
 plus strand

Proteins
for SOGA2 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: SOGA2_HUMAN, Q9Y4B5 (See protein sequence)
Recommended Name: Protein SOGA2  
Size: 1905 amino acids; 209526 Da
Sequence caution: Sequence=BAA34522.2; Type=Erroneous initiation; Note=Translation N-terminally shortened;
Secondary accessions: E9PAY7 Q6ZMQ9 Q8IWA9
Alternative splicing: 4 isoforms:  Q9Y4B5-1   Q9Y4B5-2   Q9Y4B5-3   Q9Y4B5-4   (Contains a phosphoserine at position 941. Contains a phosphoserine at position 975)

Explore the universe of human proteins at neXtProt for SOGA2: NX_Q9Y4B5

Post-translational modifications:

  • Isoform 4 is phosphorylated upon DNA damage, probably by ATM or ATR1
  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9Y4B5

    • SOGA2 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_056025.2  
    ENSEMBL proteins: 
     ENSP00000305027   ENSP00000429556   ENSP00000352927   ENSP00000463506   ENSP00000463438  
     ENSP00000463465   ENSP00000382924   ENSP00000303670  

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    Uscn Proteins for SOGA2


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    Uscn Antibodies for SOGA2
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    Uscn ELISAs and CLIAs for SOGA2

    Protein Domains /
    Families
    for SOGA2 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    SOGA2 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR021507 DUF3166

    Graphical View of Domain Structure for InterPro Entry Q9Y4B5

    ProtoNet protein and cluster: Q9Y4B5

    UniProtKB/Swiss-Prot: SOGA2_HUMAN, Q9Y4B5
    Similarity: Belongs to the SOGA family


    Function
    for SOGA2 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
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    SwitchGear 3'UTR luciferase reporter plasmid: SOGA2 3' UTR sequence
    Inhib. RNA
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    OriGene shRNA RFP: SOGA2
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    Gene Editing
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    Clone
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SOGA2 

    Cell Line
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    Search LifeMap BioReagents cell lines for SOGA2

    In Situ Assay
    Products:       
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SOGA2


    Pathways & Interactions
    for SOGA2 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 SOGA2

    STRING Interaction Network Preview (showing 4 interactants - click image to see more details)

    5/528 Interacting proteins for SOGA2 (Q9Y4B52, 3 ENSP000003529274) via UniProtKB, MINT, STRING, and/or I2D (see all 528)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    MARK2Q7KZI72, 3, ENSP000003891844MINT-7947479 I2D: score=2 STRING: ENSP00000389184
    MARK4Q96L343, ENSP000003008434I2D: score=2 STRING: ENSP00000300843
    PPP2R2BQ000053, ENSP000003365914I2D: score=2 STRING: ENSP00000336591
    CDC5LQ994592, ENSP000003605324MINT-7947479 STRING: ENSP00000360532
    ABCF1Q8NE712MINT-7947479
    About this table

    Drugs & Compounds
    for SOGA2 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 SOGA2
    Search CenterWatch for drugs/clinical trials and news about SOGA2 

    Transcripts
    for SOGA2 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 SOGA2 gene: 
    NM_015210.3  

    Unigene Cluster for SOGA2:

    SOGA family member 2
    Hs.707920  [show with all ESTs]
    Unigene Representative Sequence: NM_015210
    17 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000306329 ENST00000517570(uc002knq.2) ENST00000359865(uc002knr.2)
    ENST00000522146 ENST00000523122 ENST00000520495 ENST00000523811 ENST00000517554(uc010dkw.1)
    ENST00000521018 ENST00000518815(uc002kns.2) ENST00000522592 ENST00000518226
    ENST00000519823 ENST00000520926 ENST00000581670(uc002knt.3) ENST00000400050
    ENST00000306285

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    Inhib. RNA
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    OriGene shRNA RFP: SOGA2
    OriGene siRNA: SOGA2
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    Clone
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    Primer
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    Additional cDNA sequence: 

    AB018345.2 AK131528.1 AK307830.1 BC040542.1 BX648455.1 BX648911.1 

    10 DOTS entries:

    DT.95196320  DT.102824212  DT.111096  DT.100755235  DT.91997124  DT.75157605  DT.121103329  DT.211171 
    DT.100000905  DT.97807567 

    24/70 AceView cDNA sequences (see all 70):

    BM710103 Z40233 BU629649 BE467863 AI369161 BC040542 AA872380 W55875 
    BM450525 BU726237 BU616995 BM671270 CB139970 BM468162 BG392284 AI445806 
    W33052 AW166019 BM685873 AK131528 BX112068 AL589434 BM450638 BX953368 

    GeneLoc Exon Structure

    5/12 Alternative Splicing Database (ASD) splice patterns (SP) for SOGA2 (see all 12)    About this scheme

    ExUns: 1 ^ 2a · 2b ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6a · 6b · 6c ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b ^ 14 ^ 15 ^ 16a · 16b ^ 17 ^ 18 ^ 19a ·
    SP1:        -                                   -                       -           -     -                             -           -     -     -     -     -   
    SP2:                                            -                       -           -     -     -                       -           -     -     -     -     -   
    SP3:                                                                                            -                       -                 -     -     -     -   
    SP4:        -     -                                                                                                                                             
    SP5:                                                                    -                                                                                       

    ExUns: 19b · 19c · 19d ^ 20a · 20b · 20c · 20d ^ 21 ^ 22 ^ 23 ^ 24a · 24b
    SP1:                                                                        
    SP2:                                                                        
    SP3:                    -                                   -               
    SP4:                                                                        
    SP5:                                                                        


    ECgene alternative splicing isoforms for SOGA2

    Expression
    for SOGA2 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

    SOGA2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: ATGATGCCTC

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

    SOGA2 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    10 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    Gut TubeMidgutMidgut Endoderm CellsEndoderm
    LimbZeugopodMesenchymal Condensate CellsBone, Cartilage
    Neural TubeNeural TubeSpinal Neural Tube CellsNeural Ectoderm
    BoneZeugopod Long BoneBone
    EyeRetinaEye
    Gut TubeMidgutGut Tube
    LimbAutopodLimb
    LimbZeugopodLimb
    Spinal CordPresumptive Spinal CordSpinal Cord
    HeartLeft VentricleHeart
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See SOGA2 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SOGA2

    SOURCE GeneReport for Unigene cluster: Hs.707920
        SABiosciences Custom PCR Arrays for SOGA2
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    In Situ
    Assay Products:     
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    Orthologs
    for SOGA2 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 chordates.

    Orthologs for SOGA2 gene from 3/11 species (see all 11)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    chicken
    (Gallus gallus)    		 Aves CCDC1651 coiled-coil domain containing 165 72.35(n)
    71.65(a)    		   426050  XM_423729.3  XP_423729.3 
    lizard
    (Anolis carolinensis)    		 Reptilia CCDC1656
    		 --
    		 64(a)
    		 1 ↔ 1
    		 GL343319.1(299537-395655)
    zebrafish
    (Danio rerio)    		 Actinopterygii CABZ01050280.16
    CABZ01118047.16
    (see all 3)    		 --
    		 44(a)
    19(a)
    (see all 3)    		 1 ↔ 1
    possible ortholog
    (see all 3)    		 2(55022580-55094860)
    2(55139956-55151816)


    ENSEMBL Gene Tree for SOGA2 (if available)
    TreeFam Gene Tree for SOGA2 (if available) 

    Paralogs
    for SOGA2 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SOGA2 gene
    SOGA12  SOGA32  
    3 SIMAP similar genes for SOGA2 using alignment to 3 protein entries:     SOGA2_HUMAN (see all proteins):
    C6orf174    KIAA0408    SOGA1

    SOGA2 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for SOGA2
    PGOHUM00000248625


    Genomic Variants
    for SOGA2 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

    10/2490 NCBI SNPs in SOGA2 are shown (see all 2490)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 18 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs1841431001,2
    		--8715374(+) GTTGCC/TGATAA 1 -- us2k10--------
    rs1492163251,2
    		--8715375(+) TTGCCA/GATAAT 1 -- us2k10--------
    rs1425296321,2
    		--8715396(+) AATGAC/GTTTGG 1 -- us2k10--------
    rs797938981,2
    		C,F,--8715435(+) AAACCA/GTTCTT 1 -- us2k11Minor allele frequency- G:0.03WA 118
    rs1509258421,2
    		--8715514(+) CAGATA/GTTGAC 1 -- us2k10--------
    rs1424755811,2
    		C,--8715586(+) GAAAC-/AATT  
                AACCT     		1 -- us2k10--------
    rs358759941,2
    		C,F,--8715631(+) TCTTTC/TTCAAA 1 -- us2k16Minor allele frequency- T:0.26NA WA EA 364
    rs80875321,2
    		C,F,H,--8715663(+) GATGGG/CGTGTG 1 -- us2k14Minor allele frequency- C:0.01NS EA 408
    rs1884985231,2
    		--8715789(+) AGTGGA/GTAGTG 1 -- us2k10--------
    rs559398841,2
    		F,--8715882(+) AGAAGG/TTTGTC 1 -- us2k11Minor allele frequency- T:0.05NA 120

    HapMap Linkage Disequilibrium report for SOGA2 (8705659 - 8832776 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for SOGA2: --

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SOGA2
    DNA2.0 Custom Variant and Variant Library Synthesis for SOGA2

    Disorders / Diseases
    for SOGA2 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
    		   --

    Publications
    for SOGA2 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 SOGA2 gene, integrated from 9 sources (see all 18):
    (articles sorted by number of sources associating them with SOGA2)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Prediction of the coding sequences of unidentified human genes. XI. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PubMed id 9872452)1, 2, 3 Nagase T.... Ohara O. (1998)
    2. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PubMed id 16964243)1, 2 Beausoleil S.A.... Gygi S.P. (2006)
    3. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (2006)
    4. DNA sequence and analysis of human chromosome 18. (PubMed id 16177791)1, 2 Nusbaum C.... Lander E.S. (2005)
    5. 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)
    6. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    7. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (2010)
    8. Systematic analysis of human protein complexes identi fies chromosome segregation proteins. (PubMed id 20360068)1 Hutchins J.R....Peters J.M. (2010)
    9. 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)
    10. Defining the human deubiquitinating enzyme interactio n landscape. (PubMed id 19615732)1 Sowa M.E....Harper J.W. (2009)

    External Searches for SOGA2 gene

    (in PubMed, OMIM, and NCBI Bookshelf)
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    Genome Databases showing SOGA2 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 23255 HGNC: 29121 AceView: KIAA0802 Ensembl:ENSG00000168502 euGenes: HUgn23255
    ECgene: SOGA2 H-InvDB: SOGA2

    Other Databases showing SOGA2 gene

    (According to HUGE)
    About This Section
    HUGE: KIAA0802

    Specialized Databases showing SOGA2 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 SOGA2 Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for SOGA2 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for SOGA2 gene:
    Search GeneIP for patents involving SOGA2

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