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SOGA3 Gene

protein-coding   GIFtS: 34
GCID: GC06M127760

SOGA Family Member 3

(Previous name: chromosome 6 open reading frame 174)
(Previous symbol: C6orf174)
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(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
SOGA Family Member 31 2
C6orf1741 2 3
Chromosome 6 Open Reading Frame 1741
dJ403A15.32
Protein SOGA32

External Ids:    HGNC: 214941   Entrez Gene: 3871042   Ensembl: ENSG000002143387   UniProtKB: Q5TF213   

Export aliases for SOGA3 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 SOGA3 Gene:
SOGA3 (SOGA family member 3) is a protein-coding gene. An important paralog of this gene is MTCL1.


(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_000006.11  NC_018917.2  NT_025741.16  
Regulatory elements:
   Search for regulatory transcription factor binding sites for SOGA3
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for SOGA3

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SOGA3


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

Entrez Gene cytogenetic band: 6q22.33   Ensembl cytogenetic band:  6q22.33   HGNC cytogenetic band: 6q22.33

SOGA3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SOGA3 gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06M127760:  view genomic region     (about GC identifiers)

Start:
127,759,551 bp from pter      End:
127,840,500 bp from pter
Size:
80,950 bases      Orientation:
minus strand

1 alternative location:
Chr6- 127,759,551-127,840,146     

(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., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: SOGA3_HUMAN, Q5TF21 (See protein sequence)
Recommended Name: Protein SOGA3 precursor  
Size: 947 amino acids; 103199 Da

Explore the universe of human proteins at neXtProt for SOGA3: NX_Q5TF21

Explore proteomics data for SOGA3 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See SOGA3 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001012279.1  
    ENSEMBL proteins: 
     ENSP00000434570   ENSP00000435559   ENSP00000431662   ENSP00000451768   ENSP00000357251  

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    antibodies-online antibodies for SOGA3 (13 products) 

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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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    1 InterPro protein domain:
     IPR027881 SOGA

    Graphical View of Domain Structure for InterPro Entry Q5TF21

    ProtoNet protein and cluster: Q5TF21

    UniProtKB/Swiss-Prot: SOGA3_HUMAN, Q5TF21
    Similarity: Belongs to the SOGA family


    Find genes that share domains with SOGA3           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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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    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for SOGA3

    miRNA
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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
    SOGA3_HUMAN, Q5TF21: Membrane; Single-pass membrane protein (Potential)

    Gene Ontology (GO): 2 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005615extracellular space IEA--
    GO:0016021integral component of membrane IEA--

    Find genes that share ontologies with SOGA3           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 SOGA3
    Interactions:

        Search GeneGlobe Interaction Network for SOGA3

    3 Interacting proteins for SOGA3 (Q5TF213) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    MDM2Q009873I2D: score=1 
    NRBF2Q96F243I2D: score=1 
    YWHABP319463I2D: score=1 
    About this table

    Gene Ontology (GO): 1 biological process term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0010506regulation of autophagy IEA--

    Find genes that share ontologies with SOGA3           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 SOGA3



    (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 SOGA3 gene: 
    NM_001012279.2  

    Unigene Cluster for SOGA3:

    SOGA family member 3
    Hs.319247  [show with all ESTs]
    Unigene Representative Sequence: NM_001012279
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000525778 ENST00000465909 ENST00000467753 ENST00000556132(uc003qbd.3)
    ENST00000368268
    miRNA
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    Additional mRNA sequence: 

    AK091416.1 AK091424.1 AK096490.1 AK125983.1 AK127114.1 AK309423.1 BC018396.1 BC020441.1 
    BC127760.1 BC143043.1 BC143044.1 

    12 DOTS entries:

    DT.95306655  DT.91663683  DT.208994  DT.311637  DT.95080071  DT.95361312  DT.97805726  DT.208995 
    DT.95238113  DT.65286488  DT.95361311  DT.92049711 

    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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    SOGA3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TATACCTATA
    SOGA3 Expression
    About this image

    SOGA3 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    SOGA3 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.319247
        Custom PCR Arrays for SOGA3
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SOGA3

    (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 SOGA3 gene from Selected species (see all 13)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Soga31 SOGA family member 3 87.76(n)
    89.84(a)
      67412  NM_026138.2  NP_080414.2 
    chicken
    (Gallus gallus)
    Aves C3H6ORF1741 chromosome 3 open reading frame, human C6orf174 80.96(n)
    95.25(a)
      421713  XM_419750.4  XP_419750.4 
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    Uncharacterized protein
    88(a)
    80(a)
    many ↔ many
    many ↔ many
    1(232891110-232906567)
    GL343358.1(94974-114691)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia soga31 SOGA family member 3 76.5(n)
    90.85(a)
      100496490  XM_002940390.2  XP_002940436.1 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC1003325151 protein SOGA3-like 74.04(n)
    81.8(a)
      100332515  XM_002664780.2  XP_002664826.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG183046
    --
    8(a)
    1 → many
    2L(6932545-6942814)
    worm
    (Caenorhabditis elegans)
    Secernentea tag-2416
    Protein TAG-241, isoform a (tag-241) mRNA, complet...
    7(a)
    1 → many
    X(11826093-11836145) WBGene00044079


    ENSEMBL Gene Tree for SOGA3 (if available)
    TreeFam Gene Tree for SOGA3 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for SOGA3 gene
    MTCL12  SOGA12  
    3 SIMAP similar genes for SOGA3 using alignment to 2 protein entries:     SOGA3_HUMAN (see all proteins):
    C6orf174    KIAA0408    SOGA1

    Find genes that share paralogs with SOGA3           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 SOGA3 (see all 1002)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 6 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs776324501,2
    C,F--127782754(+) CTGATG/AACATA 1 -- int11Minor allele frequency- A:0.03NA 120
    rs1809110161,2
    --127782889(+) GTTTAC/TCACTT 1 -- int10--------
    rs1494219401,2
    C--127782934(+) TATATA/GTATAT 1 -- int10--------
    rs1447913411,2
    --127782948(+) TTATAC/TTATAT 1 -- int10--------
    rs1439829891,2
    --127782973(+) ATATAC/TAATTT 1 -- int10--------
    rs1853622931,2
    C--127783059(+) GCACAA/GCTTTT 1 -- int10--------
    rs69132161,2
    C,F,A,H--127783338(+) TGATTG/TCCCTA 1 -- int110Minor allele frequency- T:0.24NS EA NA WA 802
    rs1884678251,2
    --127783556(+) ATTTTA/TAAAAG 1 -- int10--------
    rs1114657001,2
    C--127783730(+) CCACTT/CAGTGG 1 -- int12Minor allele frequency- C:0.04CSA WA 120
    rs117595541,2
    C,H--127783756(+) aatccA/Gggtct 1 -- int10--------

    HapMap Linkage Disequilibrium report for SOGA3 (127759551 - 127840500 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for SOGA3: --
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing SOGA3
    DNA2.0 Custom Variant and Variant Library Synthesis for SOGA3

    (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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      --

    (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 SOGA3 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with SOGA3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The DNA sequence and analysis of human chromosome 6. (PubMed id 14574404)1, 2 Mungall A.J.... Beck S. (Nature 2003)
    2. Complementary quantitative proteomics reveals that transcription factor AP-4 mediates E-box-dependent complex formation for transcriptional repression of HDM2. (PubMed id 19505873)1 Ku W.C....Chen Y.J. (amp 2009)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (Nat. Genet. 2004)
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (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: 387104 HGNC: 21494 Ensembl:ENSG00000214338 euGenes: HUgn387104 ECgene: SOGA3
    H-InvDB: SOGA3

    (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 SOGA3 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 SOGA3 gene:
    Search GeneIP for patents involving SOGA3

    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, eBioscience, antibodies-online, 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 genOway)
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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 , 21 Aug 2014 , 8 Sep 2014 , 7 Oct 2014

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