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

SGPP1 Gene

protein-coding   GIFtS: 55
GCID: GC14M064150

sphingosine-1-phosphate phosphatase 1

 Explore 1 disease affiliated with
SGPP1 via our new
 Human Malady Compendium 
Biological research products
for SGPP1
    

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

Aliases
Sphingosine-1-Phosphate Phosphatase 11 2     Spp13
Sphingosine-1-Phosphatase 12 3     EC 3.1.3.-3
SPPase12 3     Spp13
HSPP11     SPPASE15
HSPPase11     EC 3.1.38

External Ids:    HGNC: 177201   Entrez Gene: 815372   Ensembl: ENSG000001268217   OMIM: 6128265   UniProtKB: Q9BX953   

Export aliases for SGPP1 gene to outside databases

Previous GC identifers: GC14M057945 GC14M062141 GC14M062140 GC14M063220 GC14M044317


(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 SGPP1:
Sphingosine-1-phosphate (S1P) is a bioactive sphingolipid metabolite that regulates diverse biologic processes. SGPP1
catalyzes the degradation of S1P via salvage and recycling of sphingosine into long-chain ceramides (Mandala et al.,
2000 (PubMed 10859351); Le Stunff et al., 2007 (PubMed 17895250)).(supplied by OMIM, Jun 2009)

UniProtKB/Swiss-Prot: SGPP1_HUMAN, Q9BX95
Function: Has enzymatic activity against both sphingosine 1-phosphate (S1P) and dihydro-S1P. Regulates intracellular
and extracellular S1P levels

Gene Wiki entry for SGPP1


(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_000014.8  NC_018925.1  NT_026437.12  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SGPP1 gene promoter:
         GR   NF-1   AML1a   Brachyury   GCNF   LCR-F1   GCNF-1   GR-alpha   ZID   GCNF-2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSGPP1 promoter sequence
   Search SABiosciences Chromatin IP Primers for SGPP1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SGPP1


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

Entrez Gene cytogenetic band: 14q23.2   Ensembl cytogenetic band:  14q23.2   HGNC cytogenetic band: 14q23.1

SGPP1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SGPP1 gene location

GeneLoc information about chromosome 14         GeneLoc Exon Structure

GeneLoc location for GC14M064150:  view genomic region     (about GC identifiers)

Start:
64,150,932 bp from pter      End:
64,194,757 bp from pter
Size:
43,826 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: SGPP1_HUMAN, Q9BX95 (See protein sequence)
Recommended Name: Sphingosine-1-phosphate phosphatase 1  
Size: 441 amino acids; 49108 Da
Subcellular location: Endoplasmic reticulum membrane; Multi-pass membrane protein
Secondary accessions: B2RAH0 Q9H189

Explore the universe of human proteins at neXtProt for SGPP1: NX_Q9BX95

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9BX95

  • 2 DME Specific Peptides for SGPP1 (Q9BX95)
     MPSTHAM  IWVLVMY 

    SGPP1 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_110418.1  
    ENSEMBL proteins: 
     ENSP00000247225  
    Reactome Protein details: Q9BX95
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    Uscn Proteins for SGPP1

    Gene Ontology (GO): 4 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005624membrane fraction ----
    GO:0005783endoplasmic reticulum ----
    GO:0005789endoplasmic reticulum membrane TAS--
    GO:0016021integral to membrane IEA--


    SGPP1 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

    SGPP1 for domains           About GeneDecksing

    2 InterPro domains/families:
     IPR000326 P_Acid_Pase_2/haloperoxidase
     IPR016118 P_Acid_Pase/Cl_peroxidase_N

    Graphical View of Domain Structure for InterPro Entry Q9BX95

    ProtoNet protein and cluster: Q9BX95

    1 Blocks protein family: IPB000326 PA-phosphatase related phosphoesterase

    UniProtKB/Swiss-Prot: SGPP1_HUMAN, Q9BX95
    Similarity: Belongs to the type 2 lipid phosphate phosphatase family


    (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

    Function Summary:

         UniProtKB/Swiss-Prot: SGPP1_HUMAN, Q9BX95
    Function: Has enzymatic activity against both sphingosine 1-phosphate (S1P) and dihydro-S1P. Regulates intracellular
    and extracellular S1P levels

    Enzyme Numbers (IUBMB): EC 3.1.32 EC 3.1.3.-1

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    hsa-miR-34c-5p hsa-miR-448 hsa-miR-449b hsa-miR-27a hsa-miR-133b hsa-miR-449a hsa-miR-34a hsa-miR-124
    SwitchGear 3'UTR luciferase reporter plasmidSGPP1 3' UTR sequence
    Inhib. RNA
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    Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0042392sphingosine-1-phosphate phosphatase activity IEA--


    SGPP1 for ontologies           About GeneDecksing


    4 GenomeRNAi human phenotypes for SGPP1:
     Decreased cilium length  Decreased cilium length after   Increased apoptosis  Increased cell spreading 


    (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

    Unified GeneCards pathways  About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1Sphingolipid metabolism
    Sphingolipid metabolism1.00
    Sphingolipid de novo biosynthesis0.46
    Sphingolipid metabolism0.54
    2Metabolism
    Metabolism1.00
    Metabolism of lipids and lipoproteins0.34
    3sphingosine and sphingosine-1-phosphate metabolism
    sphingosine and sphingosine-1-phosphate metabolism1.00
    4S1P3 pathway
    Sphingosine 1-phosphate (S1P) pathway0.40

    Pathway sources
    See GeneCards unified pathways
    Show all pathways


    2 BioSystems Pathways for SGPP1 
        sphingosine and sphingosine-1-phosphate metabolism
    Sphingosine 1-phosphate (S1P) pathway

    4        Reactome Pathways for SGPP1
        Sphingolipid metabolism
    Metabolism
    Metabolism of lipids and lipoproteins
    Sphingolipid de novo biosynthesis


    1         Kegg Pathway  (Kegg details for SGPP1):
        Sphingolipid metabolism


    SGPP1 for pathways           About GeneDecksing

    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SGPP1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    5/27 Interacting proteins for SGPP1 (Q9BX953 ENSP000002472254) via UniProtKB, MINT, STRING, and/or I2D (see all 27)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    S1PR5Q9H2283, ENSP000003284724I2D: score=1 STRING: ENSP00000328472
    ACER1ENSP000003014524STRING: ENSP00000301452
    ASAH1ENSP000003711524STRING: ENSP00000371152
    ASAH2ENSP000003788974STRING: ENSP00000378897
    DEGS1ENSP000003164764STRING: ENSP00000316476
    About this table

    Gene Ontology (GO): 5/7 biological process terms (GO ID links to tree view) (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006644phospholipid metabolic process TAS--
    GO:0006665sphingolipid metabolic process TAS--
    GO:0006668sphinganine-1-phosphate metabolic process IEA--
    GO:0006670sphingosine metabolic process IEA--
    GO:0006915apoptotic process IEA--


    SGPP1 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

    SGPP1 for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for SGPP1
    2 Novoseek chemical compound relationships for SGPP1 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    sphingosine 83.1 1 17954251 (1)
    lipid 17.3 3 17555747 (1), 12411432 (1)

    Search CenterWatch for drugs/clinical trials and news about SGPP1 

    (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,
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    About This Section

    REFSEQ mRNAs for SGPP1 gene: 
    NM_030791.2  

    Unigene Cluster for SGPP1:

    Sphingosine-1-phosphate phosphatase 1
    Hs.24678  [show with all ESTs]
    Unigene Representative Sequence: BC070060
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000247225(uc001xgj.3)

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    Additional cDNA sequence: 

    AF349315.1 AJ293294.1 AK314188.1 BC063839.1 BC070060.1 

    4 DOTS entries:

    DT.444313  DT.92426393  DT.95165317  DT.120745397 

    24/87 AceView cDNA sequences (see all 87):

    AA371461 AA331563 BM976596 AI359440 BC070060 NM_030791 BG573632 AW469435 
    AA490518 BF477459 AA261954 BX109957 AW955216 BQ026649 AJ293294 AI762918 
    AI581085 AI581365 BC063839 AA994978 AI422866 AI362319 AW511874 AA376229 

    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

    SGPP1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TAGGAAAATA

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

    About this image
    See SGPP1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SGPP1

    SOURCE GeneReport for Unigene cluster: Hs.24678

    UniProtKB/Swiss-Prot: SGPP1_HUMAN, Q9BX95
    Tissue specificity: Ubiquitous, with the strongest level in placenta and kidney

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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 eukaryotes.

    Orthologs for SGPP1 gene from 8/23 species (see all 23)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Sgpp11 , 5 sphingosine-1-phosphate phosphatase 11, 5 83.1(n)1
    81.16(a)1
      12 (32.95 cM)5
    815351  NM_030750.31  NP_109675.11 
     757142485 
    chicken
    (Gallus gallus)
    Aves SGPP11 sphingosine-1-phosphate phosphatase 1 71.22(n)
    67(a)
      428918  XM_426472.3  XP_426472.3 
    lizard
    (Anolis carolinensis)
    Reptilia SGPP16
    --
    66(a)
    1 ↔ 1
    1(2115917-2139382)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia Str.63212 Transcribed sequence with weak similarity to protein more 82.49(n)    AL967537.2 
    zebrafish
    (Danio rerio)
    Actinopterygii sgpp11 sphingosine-1-phosphate phosphatase 1 61.15(n)
    59.44(a)
      100003745  XM_001343183.3  XP_001343219.1 
    mosquito
    (Anopheles gambiae)
    Insecta AgaP_AGAP0096751 AGAP009675-PA 48.64(n)
    39.88(a)
      1279065  XM_318734.3  XP_318734.3 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT3G584906
    Phosphatidic acid phosphatase (PAP2) family protei...
    18(a)
    1 → many
    3(21632812-21635106)
    rice
    (Oryza sativa)
    Liliopsida --
    phosphatase, putative, expressed
    20(a)
    1 → many
    3(33620244-33623220)


    ENSEMBL Gene Tree for SGPP1 (if available)
    TreeFam Gene Tree for SGPP1 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SGPP1 gene
    SGPP22  
    1 SIMAP similar gene for SGPP1 using alignment to 1 protein entry:     SGPP1_HUMAN:
    SGPP2

    SGPP1 for paralogs           About GeneDecksing



    (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

    10/781 NCBI SNPs in SGPP1 are shown (see all 781    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 14 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs74927851,2
    C,H--64150542(+) CAAAAT/CAAAAT 1 -- int15Minor allele frequency- C:0.00NS EA NA 416
    rs1468530501,2
    --64150607(+) TCCTTA/GACATT 1 -- int10--------
    rs797681941,2
    C,F,--64150691(+) TAAAAG/TAAATA 1 -- int11Minor allele frequency- T:0.04WA 118
    rs1163251011,2
    --64150709(+) TTTTAC/TTAAAA 1 -- int11Minor allele frequency- T:0.01WA 118
    rs1406834771,2
    --64150721(+) TACAAC/TGTTAG 1 -- int10--------
    rs1851351181,2
    --64150722(+) ACAATA/GTTAGA 1 -- int10--------
    rs171013561,2
    C,F,H,--64150821(+) CAAAAC/TGCTTC 1 -- int18Minor allele frequency- T:0.02NA NS EA WA 678
    rs1921029371,2
    --64150868(+) ATTTTA/TAAAAT 1 -- int10--------
    rs171787951,2
    C,H,--64150976(+) TAGCAT/CAGAAC 1 -- ut31 ese37Minor allele frequency- C:0.00NA NS EA 562
    rs1840891101,2
    --64151057(+) TCAACA/GGGATA 1 -- ut310--------

    HapMap Linkage Disequilibrium report for SGPP1 (64150932 - 64194757 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for SGPP1: --

    SABiosciences Cancer Mutation PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SGPP1
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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

    SGPP1 for disorders           About GeneDecksing

    OMIM gene information: 612826    OMIM disorders: --

    1 disease for SGPP1:    About MalaCards
    retinitis

    Human Genome Epidemiology (HuGE) Navigator: SGPP1 (1 document)

    Export disorders for SGPP1 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 SGPP1 gene, integrated from 9 sources (see all 30):
    (articles sorted by number of sources associating them with SGPP1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Role of human sphingosine-1-phosphate phosphatase 1 in the regulation of intra- and extracellular sphingosine-1-phosphate levels and cell viability. (PubMed id 12815058)1, 2, 9 Johnson K.R....Obeid L.M. (2003)
    2. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (2006)
    3. 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)
    4. The DNA sequence and analysis of human chromosome 14. (PubMed id 12508121)1, 2 Heilig R.... Weissenbach J. (2003)
    5. Molecular cloning and characterization of a lipid phosphohydrolase that degrades sphingosine-1- phosphate and induces cell death. (PubMed id 10859351)1, 3 Mandala S.M....Spiegel S. (2000)
    6. Identification and characterization of a novel human sphingosine-1- phosphate phosphohydrolase, hSPP2. (PubMed id 12411432)1, 9 Ogawa C.... Igarashi Y. (2003)
    7. Role of sphingosine-1-phosphate phosphatase 1 in epidermal growth factor-induced chemotaxis. (PubMed id 15180992)1, 9 Le Stunff H....Spiegel S. (2004)
    8. Genome-wide association study identifies novel loci as sociated with circulating phospho- and sphingolipid concentrations. (PubMed id 22359512)1 Demirkan A....Schmitz G. (2012)
    9. Sphingosine-1-phosphate is increased in patients with idiopathic pulmonary fibrosis and mediates epithelial to mesenchymal transition. (PubMed id 22106015)1 Milara J....Cortijo J. (2012)
    10. Autophagy induced by deficiency of sphingosine-1-phosp hate phosphohydrolase 1 is switched to apoptosis by calpain-mediated autophagy-r elated gene 5 (Atg5) cleavage. (PubMed id 22052905)1 Lepine S....Spiegel S. (2011)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 81537 HGNC: 17720 AceView: SGPP1 Ensembl:ENSG00000126821 euGenes: HUgn81537
    ECgene: SGPP1 Kegg: 81537 H-InvDB: SGPP1

    (According to HUGE)
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    NameDescription
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