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SRM Gene

protein-coding   GIFtS: 66
GCID: GC01M011114

Spermidine Synthase


(Previous symbol: SRML1)
  See related diseases
at  

(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
Spermidine Synthase1 2     EC 2.5.1.163 8
SRML11 2 3     PAPT2
SPS12 3 5     Spermidine Synthase-12
Putrescine Aminopropyltransferase2 3     EC 2.5.18
SPDSY2 3     

External Ids:    HGNC: 112961   Entrez Gene: 67232   Ensembl: ENSG000001166497   OMIM: 1828915   UniProtKB: P196233   

Export aliases for SRM gene to outside databases

Previous GC identifers: GC01M011075 GC01M010958 GC01M010719 GC01M010824 GC01M011048 GC01M011037 GC01M010266


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for SRM Gene:
The polyamines putrescine, spermine, and spermidine are ubiquitous polycationic mediators of cell growth and
differentiation. Spermidine synthase is one of four enzymes in the polyamine-biosynthetic pathway and carries out
the final step of spermidine biosynthesis. This enzyme catalyzes the conversion of putrescine to spermidine using
decarboxylated S-adenosylmethionine as the cofactor. (provided by RefSeq, Jul 2008)

GeneCards Summary for SRM Gene:
SRM (spermidine synthase) is a protein-coding gene. Diseases associated with SRM include sleeping sickness, and trypanosomiasis. GO annotations related to this gene include spermidine synthase activity and protein homodimerization activity.

UniProtKB/Swiss-Prot: SPEE_HUMAN, P19623
Function: Catalyzes the production of spermidine from putrescine and decarboxylated S-adenosylmethionine (dcSAM).
Has a strong preference for putrescine as substrate, and has very low activity towards 1,3-diaminopropane. Has
extremely low activity towards spermidine




(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:
NC_000001.11  NC_018912.2  NT_032977.10  
Regulatory elements:
   Regulatory transcription factor binding sites in the SRM gene promoter:
         Max1   Max   NRSF form 1   NRSF form 2   c-Myc   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSRM promoter sequence
   Search Chromatin IP Primers for SRM

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


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

Entrez Gene cytogenetic band: 1p36-p22   Ensembl cytogenetic band:  1p36.22   HGNC cytogenetic band: 1p36-p22

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

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M011114:  view genomic region     (about GC identifiers)

Start:
11,114,641 bp from pter      End:
11,120,091 bp from pter
Size:
5,451 bases      Orientation:
minus strand

(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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: SPEE_HUMAN, P19623 (See protein sequence)
Recommended Name: Spermidine synthase  
Size: 302 amino acids; 33825 Da
Subunit: Homodimer or homotetramer
5 PDB 3D structures from and Proteopedia for SRM:
2O05 (3D)        2O06 (3D)        2O07 (3D)        2O0L (3D)        3RW9 (3D)    
Secondary accessions: B1AKP9 Q15511

Explore the universe of human proteins at neXtProt for SRM: NX_P19623

Explore proteomics data for SRM at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys96, Lys135, Lys277
  • Modification sites at PhosphoSitePlus
  • Selected DME Specific Peptides for SRM (P19623) (see all 5)
     IGGGDGG  IPTYPSG  IGFMLCS  VLIIGGGDG 


    See SRM Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_003123.2  
    ENSEMBL proteins: 
     ENSP00000366156   ENSP00000465966   ENSP00000467669   ENSP00000465687   ENSP00000468760  
    Reactome Protein details: P19623

    SRM Human Recombinant Protein Products:

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    Novus Biologicals SRM Proteins
    Novus Biologicals SRM Lysate
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    Browse Sino Biological Cell Lysates
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    Cloud-Clone Corp. Proteins for SRM

    SRM Antibody Products:

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    SRM Assay Products:

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    Cloud-Clone Corp. CLIAs for SRM


    (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:
     IPR001045 Spermidine/spermine_synthase

    Graphical View of Domain Structure for InterPro Entry P19623

    ProtoNet protein and cluster: P19623

    1 Blocks protein domain: IPB001045 Spermine synthase

    UniProtKB/Swiss-Prot: SPEE_HUMAN, P19623
    Similarity: Belongs to the spermidine/spermine synthase family
    Similarity: Contains 1 PABS (polyamine biosynthesis) domain


    SRM for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, 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, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SPEE_HUMAN, P19623
    Function: Catalyzes the production of spermidine from putrescine and decarboxylated S-adenosylmethionine (dcSAM).
    Has a strong preference for putrescine as substrate, and has very low activity towards 1,3-diaminopropane. Has
    extremely low activity towards spermidine
    Catalytic activity: S-adenosyl 3-(methylthio)propylamine + putrescine = 5'-S-methyl-5'-thioadenosine + spermidine
    Enzyme regulation: The activity is thought to be regulated mainly by the availability of decarboxylated
    S-adenosylmethionine
    Biophysicochemical properties: Kinetic parameters: KM=20 uM for putrescine; KM=0.9 uM for
    S-adenosylmethioninamine;

         Genatlas biochemistry entry for SRM:
    spermidine synthetase,polyamine biosynthesis

         Enzyme Numbers (IUBMB): EC 2.5.1.161 2 EC 2.5.12

         Gene Ontology (GO): 4 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003824catalytic activity ----
    GO:0004766spermidine synthase activity IDA17585781
    GO:0016740transferase activity ----
    GO:0042803protein homodimerization activity IDA17585781
         
    SRM for ontologies           About GeneDecksing


    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for SRM
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for SRM
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for SRM

    miRNA
    Products:
        
    miRTarBase miRNAs that target SRM:
    hsa-mir-423-5p (MIRT038148), hsa-mir-320a (MIRT044635), hsa-mir-744-5p (MIRT037588), hsa-mir-455-3p (MIRT037815), hsa-mir-7-5p (MIRT025815)

    Block miRNA regulation of human, mouse, rat SRM using miScript Target Protectors
    7 qRT-PCR Assays for microRNAs that regulate SRM:
    hsa-miR-141 hsa-miR-3184 hsa-miR-1914* hsa-miR-1324 hsa-miR-200a hsa-miR-3676 hsa-miR-423-5p
    SwitchGear 3'UTR luciferase reporter plasmidSRM 3' UTR sequence
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for SRM
    Predesigned siRNA for gene silencing in human, mouse, rat SRM

    Gene Editing
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    Clone
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    OriGene ORF clones in mouse, rat for SRM
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: SRM (NM_003132)
    Sino Biological Human cDNA Clone for SRM
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for SRM
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SRM

    Cell Line
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    GenScript Custom overexpressing Cell Line Services for SRM
    Browse ESI BIO Cell Lines and PureStem Progenitors for SRM 
    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SRM


    (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 COMPARTMENTS: 

    CompartmentConfidence
    cytosol4
    nucleus2
    chloroplast1
    extracellular1
    peroxisome1

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005829cytosol TAS--

    SRM for ontologies           About GeneDecksing


    (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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    SuperPaths for SRM About   (see all 7)  
    See pathways by source

    SuperPathContained pathways About
    1Metabolism of amino acids and derivatives
    Metabolism of amino acids and derivatives
    spermidine biosynthesis I0.00
    Metabolism of polyamines0.00
    2Metabolism
    Metabolism0.38
    Metabolic pathways0.38
    3Arginine and proline metabolism
    Arginine and proline metabolism
    Urea cycle and metabolism of amino groups0.00
    4Glutathione metabolism
    Glutathione metabolism0.65
    5Sulfur amino acid metabolism
    Cysteine and methionine metabolism0.35

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    3 BioSystems Pathways for SRM
        Nucleotide Metabolism
    spermidine biosynthesis I
    Urea cycle and metabolism of amino groups


    1 Reactome Pathway for SRM
        Metabolism of polyamines


    5 Kegg Pathways  (Kegg details for SRM):
        Cysteine and methionine metabolism
    Arginine and proline metabolism
    beta-Alanine metabolism
    Glutathione metabolism
    Metabolic pathways

    UniProtKB/Swiss-Prot: SPEE_HUMAN, P19623
    Pathway: Amine and polyamine biosynthesis; spermidine biosynthesis; spermidine from putrescine: step 1/1


    SRM for pathways           About GeneDecksing

        Pathway & Disease-focused RT2 Profiler PCR Array including SRM: 

              Amino Acid Metabolism I in human mouse rat

    Interactions:

        Search GeneGlobe Interaction Network for SRM

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

    Selected Interacting proteins for SRM (P196233 ENSP000003661564) via UniProtKB, MINT, STRING, and/or I2D (see all 87)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ENSG00000096171P266403I2D: score=1 
    ENSG00000224264P266403I2D: score=1 
    ENSG00000226589P266403I2D: score=1 
    ENSG00000231116P266403I2D: score=1 
    VARSP266403I2D: score=1 
    About this table

    Gene Ontology (GO): 4 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006595polyamine metabolic process TAS--
    GO:0008295spermidine biosynthetic process IEA--
    GO:0034641cellular nitrogen compound metabolic process TAS--
    GO:0044281small molecule metabolic process TAS--

    SRM for ontologies           About GeneDecksing



    (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
       Enzo Life Sciences drugs & compounds for SRM
      Browse compounds at ApexBio 

    Browse Tocris compounds for SRM (SPEE)

    6 HMDB Compounds for SRM    About this table
    CompoundSynonyms CAS #PubMed Ids
    5'-Methylthioadenosine1-(6-amino-9H-purin-9-yl)-1-deoxy-5-S-methyl-5-thio-beta-D-Ribofuranose (see all 14)2457-80-9--
    Cadaverine1,5-Diaminopentane (see all 9)462-94-2--
    Putrescine1,4-Butanediamine (see all 8)110-60-1--
    S-Adenosylmethioninamine(5-deoxy-5-adenosyl)(3-aminopropyl) methylsulfonium salt (see all 7)22365-13-5--
    Spermidine1,5,10-Triazadecane (see all 15)124-20-9--
    Spermine1,5,10,14-Tetraazatetradecane (see all 18)71-44-3--

    1 DrugBank Compound for SRM    About this table
    CompoundSynonyms CAS #TypeActionsPubMed Ids
    S-AdenosylmethionineAcylcarnitine (see all 6)29908-03-0enzymesubstrate15499902 11870804 12843627

    Selected Novoseek inferred chemical compound relationships for SRM gene (see all 13)    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    adodato 93.7 1 16428313 (1)
    spermidine 93.3 125 11870804 (8), 15913804 (8), 17585781 (4), 16428313 (3) (see all 50)
    1-aminooxy-3-aminopropane 89.7 1 7896733 (1)
    s-adenosylmethionine 85.5 16 8787035 (1), 12843627 (1), 1930914 (1), 9020892 (1) (see all 13)
    putrescine 84.9 8 8343131 (1), 1525834 (1), 16472757 (1), 17585781 (1) (see all 5)
    spermine 84.3 14 7546290 (2), 8343131 (1), 14705926 (1), 1525834 (1) (see all 13)
    ornithine 80.8 14 20103728 (1), 8787035 (1), 17897063 (1), 1930914 (1) (see all 14)
    5-methylthioadenosine 78 5 14705926 (1), 2292587 (1), 16472757 (1)
    trypanothione 75.9 18 17897063 (1), 17610127 (1), 18221178 (1)
    propylamine 71 1 16472757 (1)



    SRM for compounds           About GeneDecksing



    (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, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for SRM gene: 
    NM_003132.2  

    Unigene Cluster for SRM:

    Spermidine synthase
    Hs.76244  [show with all ESTs]
    Unigene Representative Sequence: BF680544
    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000475189 ENST00000376957(uc001arz.1) ENST00000490101 ENST00000465788
    ENST00000459997 ENST00000487300
    miRNA
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    7 qRT-PCR Assays for microRNAs that regulate SRM:
    hsa-miR-141 hsa-miR-3184 hsa-miR-1914* hsa-miR-1324 hsa-miR-200a hsa-miR-3676 hsa-miR-423-5p
    SwitchGear 3'UTR luciferase reporter plasmidSRM 3' UTR sequence
    Inhib. RNA
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    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat SRM
      QuantiTect SYBR Green Assays in human, mouse, rat SRM
      QuantiFast Probe-based Assays in human, mouse, rat SRM

    Additional mRNA sequence: 

    BC000309.2 BC033106.1 M34338.1 

    11 DOTS entries:

    DT.448003  DT.92341873  DT.99934540  DT.91771516  DT.100711264  DT.100817228  DT.100817236  DT.95302103 
    DT.95302109  DT.95302114  DT.97855068 

    Selected AceView cDNA sequences (see all 483):

    BX116879 BX381384 CR590206 BM917512 BU538810 AI989761 CB159153 T28362 
    CR615659 BM799000 CR603559 BQ056697 BU539362 BE407318 CA425146 CA776231 
    BM711303 BG030097 AJ710914 BU860578 BC033106 BG327081 BM016125 AA365918 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for SRM (see all 6)    About this scheme

    ExUns: 1 ^ 2a · 2b ^ 3a · 3b · 3c · 3d ^ 4 ^ 5 ^ 6a · 6b ^ 7a · 7b ^ 8a · 8b · 8c · 8d
    SP1:        -                             -                 -           -                                 
    SP2:                                      -                             -                                 
    SP3:                                      -                 -     -     -                                 
    SP4:                                      -                                                               
    SP5:                                                                                                      


    ECgene alternative splicing isoforms for SRM

    (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)
    About This Section

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


    SRM expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 7) fully expand
     
     Brain (Nervous System)    fully expand to see all 5 entries
             Cerebral Cortex
     
     Neural Tube (Nervous System)    fully expand to see all 2 entries
             Telencephalon
     
     Thymus (Hematopoietic System)
             Thymus
     
     Heart (Cardiovascular System)
             Cardiac Crescent Cells Cardiac Crescent
     
     Bone (Muscoskeletal System)
             Membranous Facial Bones
    SRM Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    SRM Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.76244
        Pathway & Disease-focused RT2 Profiler PCR Array including SRM: 
              Amino Acid Metabolism I in human mouse rat

    Primer
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    QuantiFast Probe-based Assays in human, mouse, rat SRM
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SRM

    (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 eukaryotes.

    Orthologs for SRM gene from Selected species (see all 29)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Srm1 , 5 spermidine synthase1, 5 88.85(n)1
    94.7(a)1
      4 (78.76 cM)5
    208101  NM_009272.41  NP_033298.11 
     1485915035 
    chicken
    (Gallus gallus)
    Aves SRM1 spermidine synthase 80.95(n)
    89.05(a)
      771447  XM_001234727.3  XP_001234728.3 
    lizard
    (Anolis carolinensis)
    Reptilia SRM6
    spermidine synthase
    86(a)
    1 ↔ 1
    GL343615.1(89104-96146)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.255592 Xenopus laevis transcribed sequence with moderate similarity more 76.77(n)    BX855115.1 
    zebrafish
    (Danio rerio)
    Actinopterygii zgc636002 similar to spermidine synthase 73.44(n)   394009  BC055159.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG83273
    SpdS1
    spermidine synthase3
    Spermidine Synthase1
    55(a)3
    62.86(n)1
    56.07(a)1
      411671  NM_001260076.21  NP_001247005.11 
    worm
    (Caenorhabditis elegans)
    Secernentea Y46G5A.193
    spds-11
    spermidine synthesis3
    spds-11
    48(a)3
    58.7(n)1
    57.68(a)1
      II(12806802-12810690)3
    1749141  NM_001136357.11  NP_001129829.11 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes SPE3(YPR069C)4
    SPE31
    Spermidine synthase, involved in biosynthesis of spermidine more4
    SPE31
    57.28(n)1
    58.1(a)1
      16(685437-684556)4
    8561821, 4  NP_015394.11, 4 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons SPDS11 SPDS1 55.48(n)
    52.86(a)
      838993  NM_102230.4  NP_173794.2 
    rice
    (Oryza sativa)
    Liliopsida Os.45992 Oryza sativa mRNA for spermidine synthase 1 (spdSyn1 more 72.21(n)    AK099606.1 


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

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

    SRM for paralogs           About GeneDecksing


    3 Pseudogenes.org Pseudogenes for SRM
    PGOHUM00000247820 PGOHUM00000247667 PGOHUM00000240286


    (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 SRM (see all 191)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1166217971,2
    F--11114175(+) ATGCCG/AGGTGG 1 -- ds50011Minor allele frequency- A:0.03WA 118
    rs1503614761,2
    C--11114206(+) GCCAGC/TGTTAA 1 -- ds50010--------
    rs1814863901,2
    --11114250(+) CAGCCA/CCGCCA 1 -- ds50010--------
    rs1391275131,2
    --11114343(+) CCGGGA/CAGCCC 1 -- ds50010--------
    rs1857322491,2
    C--11114386(+) GGGCTA/GTCACC 1 -- ds50010--------
    rs1141233501,2
    F--11114460(+) CCCACG/ATGACG 1 -- ds50011Minor allele frequency- A:0.05WA 118
    rs1431409661,2
    --11114499(+) ATCCAC/TGATGG 1 -- ds50010--------
    rs1114941621,2
    F--11114507(+) TGGCCC/TGCCTG 1 -- ds50012Minor allele frequency- T:0.50CSA 4
    rs1470680291,2
    --11114666(+) CGTGTG/TTGGTG 1 -- ut310--------
    rs774674361,2
    C,F--11114871(+) ACCCCG/ACAGGC 1 -- ut311Minor allele frequency- A:0.08WA 118

    HapMap Linkage Disequilibrium report for SRM (11114641 - 11120091 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for SRM:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv871818CNV Loss21882294
    nsv870986CNV Loss21882294
    nsv832425CNV Loss17160897
    dgv137n71CNV Loss21882294

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing SRM
    DNA2.0 Custom Variant and Variant Library Synthesis for SRM

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 182891    OMIM disorders: --

    15 diseases for SRM:    
    About MalaCards
    sleeping sickness    trypanosomiasis    lymphoid leukemia    chagas disease
    leishmaniasis    malaria    cholestasis    cholera
    b-cell lymphomas    pneumonia    myeloma    cerebritis
    hepatitis    leukemia    prostatitis

    1 disease from the University of Copenhagen DISEASES database for SRM:
    Sleeping sickness

    SRM for disorders           About GeneDecksing

    7 Novoseek inferred disease relationships for SRM gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    trypanosomiasis african 67.4 1 12653650 (1)
    leishmaniasis 32.4 1 12653650 (1)
    chagas disease 30.2 1 12653650 (1)
    malaria 23.4 3 15913804 (2), 12653650 (1)
    lymphoma b-cell 20 2 20103728 (1), 20103729 (1)
    myeloma 19.7 2 2069720 (1), 7774716 (1)
    cancer 0 3 20103729 (1)


    Export disorders for SRM 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)
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    PubMed articles for SRM gene, integrated from 10 sources (see all 75):
    (articles sorted by number of sources associating them with SRM)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Human spermidine synthase: cloning and primary structure. (PubMed id 2344393)1, 2, 3, 9 Wahlfors J....Eloranta T. (DNA Cell Biol. 1990)
    2. Structure and mechanism of spermidine synthases. (PubMed id 17585781)1, 2, 9 Wu H....Plotnikov A.N. (Biochemistry 2007)
    3. Human spermidine synthase gene: structure and chromosomal localization. (PubMed id 2069720)1, 2, 9 Myoehaenen S.... Jaenne J. (DNA Cell Biol. 1991)
    4. 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. (Genome Res. 2004)
    5. Androgen regulation of spermidine synthase expression in the rat prostate. (PubMed id 11870804)7, 9 Cyriac J....Wang Z. (Prostate 2002)
    6. Synthetic decarboxylated S-adenosyl-L-methionine as a substrate for aminopropyl transferases. (PubMed id 12843627)7, 9 Dejima H....Samejima K. (amp 2003)
    7. Inhibition of spermidine synthase gene expression by transforming growth factor-beta 1 in hepatoma cells. (PubMed id 9020892)1, 9 Nishikawa Y....Carr B.I. (Biochem. J. 1997)
    8. Regulation of the human spermidine synthase mRNA translation by its 5'-untranslated region. (PubMed id 7774716)1, 9 Kauppinen L. (FEBS Lett. 1995)
    9. Transgenic mice over-expressing the human spermidine synthase gene. (PubMed id 8343131)1, 9 Kauppinen L....JAonne J. (Biochem. J. 1993)
    10. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (Cell 2012)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    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: 6723 HGNC: 11296 AceView: SRM Ensembl:ENSG00000116649 euGenes: HUgn6723
    ECgene: SRM Kegg: 6723 H-InvDB: SRM

    (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)
    About This Section

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    NameDescription
    PharmGKB entry for SRM 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 SRM gene:
    Search GeneIP for patents involving SRM

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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