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

SSBP2 Gene

protein-coding   GIFtS: 53
GCID: GC05M080751

single-stranded DNA binding protein 2

(Previous name: single-stranded DNA-binding protein 2 )
 Explore 14 diseases affiliated with
SSBP2 via our new
 Human Malady Compendium 
Biological research products
for SSBP2
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Single-Stranded DNA Binding Protein 21 2
HSPC1161 2
Single-Stranded DNA-Binding Protein 21 2
Sequence-Specific Single-Stranded-DNA-Binding Protein 22 3
SOSS-B22
SSDP23

External Ids:    HGNC: 158311   Entrez Gene: 236352   Ensembl: ENSG000001456877   OMIM: 6073895   UniProtKB: P818773   

Export aliases for SSBP2 gene to outside databases

Previous GC identifers: GC05M079501 GC05M080954 GC05M080754 GC05M080799 GC05M075924


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

Entrez Gene summary for SSBP2:
SSBP2 is a subunit of a single-stranded DNA (ssDNA)-binding complex involved in the maintenance of genome stability
(Huang et al., 2009) (PubMed 19683501).(supplied by OMIM, Feb 2010)

Gene Wiki entry for SSBP2


(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_000005.9  NC_018916.1  NT_006713.15  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SSBP2 gene promoter:
         ER-alpha   COMP1   FOXO3a   FOXO3   LUN-1   FOXO3b   GATA-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSSBP2 promoter sequence
   Search SABiosciences Chromatin IP Primers for SSBP2

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SSBP2


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

Entrez Gene cytogenetic band: 5q14.1   Ensembl cytogenetic band:  5q14.1   HGNC cytogenetic band: 5q14.1

SSBP2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SSBP2 gene location

GeneLoc information about chromosome 5         GeneLoc Exon Structure

GeneLoc location for GC05M080751:  view genomic region     (about GC identifiers)

Start:
80,708,840 bp from pter      End:
81,047,616 bp from pter
Size:
338,777 bases      Orientation:
minus strand

(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: SSBP2_HUMAN, P81877 (See protein sequence)
Recommended Name: Single-stranded DNA-binding protein 2  
Size: 361 amino acids; 37828 Da
Subcellular location: Nucleus (By similarity)
Secondary accessions: B2R5W1 B7Z1J2 B7Z2L9 B7Z665 D6RH18 E9PB74 E9PDA8 Q8N2Q2 Q9BWW6 Q9Y4T7
Alternative splicing: 5 isoforms:  P81877-1   P81877-2   P81877-3   P81877-4   P81877-5   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for SSBP2: NX_P81877

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_P81877

  • SSBP2 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (6 alternative transcripts): 
    NP_001243661.1  NP_001243662.1  NP_001243663.1  NP_001243664.1  NP_001243665.1  NP_036578.2  

    ENSEMBL proteins: 
     ENSP00000322977   ENSP00000422961   ENSP00000426183   ENSP00000425146   ENSP00000424561  
     ENSP00000423969   ENSP00000424657   ENSP00000422756  

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    Uscn Proteins for SSBP2

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus NAS--
    GO:0005737cytoplasm IDA--


    SSBP2 for ontologies           About GeneDecksing



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

    SSBP2 for domains           About GeneDecksing

    3 InterPro domains/families:
     IPR008116 SSDP_DNA-bd
     IPR007591 SSDP_ss-bd
     IPR006594 LisH_dimerisation

    Graphical View of Domain Structure for InterPro Entry P81877

    ProtoNet protein and cluster: P81877

    2 Blocks protein families:
    IPB006594 Lissencephaly type-1-like homology motif
    IPB007591 Single-stranded DNA-binding protein


    UniProtKB/Swiss-Prot: SSBP2_HUMAN, P81877
    Similarity: Contains 1 LisH domain


    (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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    hsa-miR-30c hsa-miR-3689b hsa-miR-345 hsa-miR-3607-5p hsa-miR-520d-5p hsa-miR-513a-5p hsa-miR-3678-5p hsa-miR-134
    SwitchGear 3'UTR luciferase reporter plasmidSSBP2 3' UTR sequence
    Inhib. RNA
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    Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003697single-stranded DNA binding NAS12079286
    GO:0005515protein binding ----


    SSBP2 for ontologies           About GeneDecksing


    Animal Models:
         Mouse knock-out Ssbp2tm1Lana for SSBP2
         8 MGI mutant phenotypes (inferred from 1 allele(MGI details for Ssbp2):
     cardiovascular system  cellular  hematopoietic system  immune system  mortality/aging 
     renal/urinary system  skeleton  tumorigenesis 

    SSBP2 for phenotypes           About GeneDecksing


    (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 SSBP2

    STRING Interaction Network Preview (showing 5 interactants - click image to see 11)

    5/32 Interacting proteins for SSBP2 (P818772, 3 ENSP000003229774) via UniProtKB, MINT, STRING, and/or I2D (see all 32)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    LDB1Q86U702, 3, ENSP000003924664MINT-67628 I2D: score=6 STRING: ENSP00000392466
    IL36RNQ9UBH02, 3, ENSP000002592124MINT-67709 I2D: score=5 STRING: ENSP00000259212
    TAL1P175423, ENSP000002943394I2D: score=2 STRING: ENSP00000294339
    DYRK2Q926303, ENSP000003421054I2D: score=1 STRING: ENSP00000342105
    LDB2O436793, ENSP000003067724I2D: score=1 STRING: ENSP00000306772
    About this table

    Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006355regulation of transcription, DNA-dependent NAS12079286


    SSBP2 for ontologies           About GeneDecksing



    (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 SSBP2
    Search CenterWatch for drugs/clinical trials and news about SSBP2 

    (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 SSBP2 gene (6 alternative transcripts): 
    NM_001256732.1  NM_001256733.1  NM_001256734.1  NM_001256735.1  NM_001256736.1  NM_012446.3  

    Unigene Cluster for SSBP2:

    Single-stranded DNA binding protein 2
    Hs.102735  [show with all ESTs]
    Unigene Representative Sequence: NM_001256732
    18/19 Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 19):
    ENST00000320672(uc003khn.3 uc003kho.3 uc003khp.3 uc011ctp.2 uc011ctq.2 uc011ctr.2)
    ENST00000509053 ENST00000514493 ENST00000504985 ENST00000512923 ENST00000510060
    ENST00000505980 ENST00000515395 ENST00000513785 ENST00000504136 ENST00000509743
    ENST00000507655 ENST00000507472 ENST00000509013 ENST00000504174 ENST00000512098
    ENST00000506960 ENST00000507968

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    hsa-miR-30c hsa-miR-3689b hsa-miR-345 hsa-miR-3607-5p hsa-miR-520d-5p hsa-miR-513a-5p hsa-miR-3678-5p hsa-miR-134
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    Additional cDNA sequence: 

    AF077048.1 AF161465.1 AK074537.1 AK293544.1 AK294864.1 AK297494.1 AK299858.1 AK312337.1 
    AL080076.1 BC017020.1 CR936787.1 

    14 DOTS entries:

    DT.116221  DT.100663167  DT.100810367  DT.91759265  DT.100717230  DT.87046177  DT.100027979  DT.309693 
    DT.120810534  DT.100773572  DT.100810362  DT.120810582  DT.91759268  DT.40109593 

    24/232 AceView cDNA sequences (see all 232):

    AL537293 CA393473 CB250676 BQ575040 BM763659 BI517313 CR605486 CR613597 
    BX397790 CD676136 N26986 BC017020 CA444691 CA426910 BM800600 BM459374 
    AA458637 BF446687 BM923177 BF477950 AL712240 AI096339 NM_012446 AA251760 

    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™, 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

    SSBP2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GATAGGAATA

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

    About this image

    SSBP2 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    2 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    LimbForelimb MyotomeLimb Muscle Progenitor CellsSkeletal Muscle
    BrainHypothalamusBrain
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See SSBP2 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SSBP2

    SOURCE GeneReport for Unigene cluster: Hs.102735

    UniProtKB/Swiss-Prot: SSBP2_HUMAN, P81877
    Tissue specificity: Ubiquitous

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    In Situ
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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)
    About This Section

    This gene was present in the common ancestor of animals.

    Orthologs for SSBP2 gene from 6/19 species (see all 19)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Ssbp21 , 5 single-stranded DNA binding protein 21, 5 95.66(n)1
    99.72(a)1
      13 (47.43 cM)5
    669701  NM_024272.41  NP_077234.21 
     914602835 
    chicken
    (Gallus gallus)
    Aves SSBP21 single-stranded DNA binding protein 2 91.76(n)
    98.89(a)
      770958  XM_001234273.2  XP_001234274.2 
    African clawed frog
    (Xenopus laevis)
    Amphibia ssbp2-prov2 single-stranded DNA binding protein 2 82.83(n)    BC042259.1 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC7980861 single-stranded DNA-binding protein 2-like 76.48(n)
    88.29(a)
      798086  XM_001338506.4  XP_001338542.4 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG71873 single-stranded DNA binding 91(a)   90F1   --
    worm
    (Caenorhabditis elegans)
    Secernentea sam-106
    --
    22(a)
    possible ortholog
    II(13321943-13330755)


    ENSEMBL Gene Tree for SSBP2 (if available)
    TreeFam Gene Tree for SSBP2 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SSBP2 gene
    SSBP42  SSBP32  
    3 SIMAP similar genes for SSBP2 using alignment to 4 protein entries:     SSBP2_HUMAN (see all proteins):
    SSDP4    SSBP3    SSBP4

    SSBP2 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for SSBP2
    PGOHUM00000243267


    (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

    10/4860 NCBI SNPs in SSBP2 are shown (see all 4860    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 5 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1924654621,2
    --80712750(+) ATCTCA/GGCTCA 6 -- ds50010--------
    rs1828719621,2
    --80712885(+) CACCAG/TGTTGG 6 -- ds50010--------
    rs1176200861,2
    C,F,--80713033(+) TCAGCA/GACTGA 6 -- ds50011Minor allele frequency- G:0.03EA 120
    rs119496971,2
    C,F,A,H,--80713096(+) ATGTGT/GTGTAT 6 -- ds5001 ese323Minor allele frequency- G:0.41NS EA NA WA CSA 2702
    rs1860056681,2
    --80713293(+) ATTTAA/GTATGT 6 -- ut310--------
    rs786686881,2
    C,--80713305(+) CAATGC/TAGCAA 6 -- ut313Minor allele frequency- T:0.15CSA WA NA 240
    rs10547991,2
    C,--80713340(-) TACACG/ATCATC 6 -- ut31 ese34Minor allele frequency- A:0.01NA 144
    rs1165805671,2
    --80713365(+) AACAGG/ATAGTA 6 -- ut311Minor allele frequency- A:0.01WA 118
    rs1449108261,2
    --80713390(+) CACGAA/GTGCAT 6 -- ut310--------
    rs792806651,2
    --80713440(+) TCTTAC/TTACAA 6 -- ut310--------

    HapMap Linkage Disequilibrium report for SSBP2 (80708840 - 80958840 bp, first 250kb of SSBP2)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 20 variations for SSBP2
         11 CNVs: 99184 80965 93120 93115 80966 93118 93121 4456 99185 51744 80964
         9 Indels: 28016 42901 12709 41854 46929 40774 46928 40775 40776

    SABiosciences Cancer Mutation PCR Assays
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    (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

    SSBP2 for disorders           About GeneDecksing

    OMIM gene information: 607389    OMIM disorders: --

    14 diseases for SSBP2:    About MalaCards
    anorexia nervosa    esophageal squamous cell carcinoma    squamous cell carcinoma    acute lymphocytic leukemia
    myeloproliferative disorder    lymphocytic leukemia    lissencephaly    myeloid leukemia
    hematopoiesis    leukemia    esophagitis    prostate cancer
    carcinoma    prostatitis

    Human Genome Epidemiology (HuGE) Navigator: SSBP2 (1 document)

    Export disorders for SSBP2 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)
    About This Section

    PubMed articles for SSBP2 gene, integrated from 9 sources (see all 29):
    (articles sorted by number of sources associating them with SSBP2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PubMed id 11230166)1, 2, 3 Wiemann S.... Poustka A. (2001)
    2. 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)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    4. A novel, evolutionarily conserved gene family with putative sequence- specific single-stranded DNA-binding activity. (PubMed id 12079286)1, 2 Castro P.D.... Nagarajan L. (2002)
    5. Gene expression profiling in the human hypothalamus-pituitary-adrenal axis and full-length cDNA cloning. (PubMed id 10931946)1, 2 Hu R.-M.... Chen J.-L. (2000)
    6. Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells. (PubMed id 11042152)1, 3 Zhang Q.-H.... Chen Z. (2000)
    7. Adenoviral E1B55K oncoprotein sequesters candidate leukemia suppressor sequence-specific single-stranded DNA-binding protein 2 into aggresomes. (PubMed id 17311003)1, 9 Fleisig H.B....Nagarajan L. (2007)
    8. SSBP2, a candidate tumor suppressor gene, induces growth arrest and differentiation of myeloid leukemia cells. (PubMed id 15782145)1, 9 Liang H....Nagarajan L. (2005)
    9. SSBP2 variants are associated with survival in gliobla stoma patients. (PubMed id 22472174)1 Xiao Y....Wrensch M.R. (2012)
    10. Cigarette smoke induces promoter methylation of singl e-stranded DNA-binding protein 2 in human esophageal squamous cell carcinoma. (PubMed id 20658532)1 Huang Y....Kim M.S. (2011)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 23635 HGNC: 15831 AceView: SSBP2 Ensembl:ENSG00000145687 euGenes: HUgn23635
    ECgene: SSBP2 H-InvDB: SSBP2

    (According to HUGE)
    About This Section
      --

    (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 SSBP2 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 SSBP2 gene:
    Search GeneIP for patents involving SSBP2

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