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

SDR42E1 Gene

protein-coding   GIFtS: 45
GCID: GC16M082031

Short Chain Dehydrogenase/Reductase Family 42E, Member 1

  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)
About This Section

Aliases
Short Chain Dehydrogenase/Reductase Family 42E, Member 11 2
Short-Chain Dehydrogenase/Reductase Family 42E Member 12
EC 1.1.1.-3
EC 1.1.18
EC 1.1.1.378

External Ids:    HGNC: 298341   Entrez Gene: 935172   Ensembl: ENSG000001848607   UniProtKB: Q8WUS83   

Export aliases for SDR42E1 gene to outside databases

Previous GC identifers: GC16M080590 GC16M067784


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

GeneCards Summary for SDR42E1 Gene: 
SDR42E1 (short chain dehydrogenase/reductase family 42E, member 1) is a protein-coding gene. Diseases associated with SDR42E1 include tuberculosis, and hepatitis. GO annotations related to this gene include 3-beta-hydroxy-delta5-steroid dehydrogenase activity and nucleotide binding. An important paralog of this gene is HSD3B2.


(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000016.9  NT_010498.15  NC_018927.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SDR42E1 gene promoter:
         RORalpha1   S8   HNF-1   MyoD   GR-alpha   Pax-4a   Cdc5   HNF-1A   En-1   RORalpha2   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for SDR42E1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SDR42E1


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

Entrez Gene cytogenetic band: 16q23.3   Ensembl cytogenetic band:  16q23.3   HGNC cytogenetic band: 16q23.3

SDR42E1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SDR42E1 gene location

GeneLoc information about chromosome 16         GeneLoc Exon Structure

GeneLoc location for GC16M082031:  view genomic region     (about GC identifiers)

Start:
82,031,221 bp from pter      End:
82,045,093 bp from pter
Size:
13,873 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: D42E1_HUMAN, Q8WUS8 (See protein sequence)
Recommended Name: Short-chain dehydrogenase/reductase family 42E member 1  
Size: 393 amino acids; 44284 Da
Subcellular location: Membrane; Multi-pass membrane protein (Potential)
Sequence caution: Sequence=EAW95521.1; Type=Erroneous gene model prediction;
Secondary accessions: B2RDS1 Q9P0D1

Explore the universe of human proteins at neXtProt for SDR42E1: NX_Q8WUS8

Explore proteomics data for SDR42E1 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q8WUS8

  • 4/10 DME Specific Peptides for SDR42E1 (Q8WUS8) (see all 10)
     DHYSRTK  LEKAKKEL  KTGVTHYF  GDESLPYLP 

    SDR42E1 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    SDR42E1 Protein Expression
    REFSEQ proteins: NP_660151.2  
    ENSEMBL proteins: 
     ENSP00000332407   ENSP00000434529  

    Human Recombinant Protein Products for SDR42E1: 
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    Cloud-Clone Corp. Proteins for SDR42E1 

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016021integral to membrane IEA--

    SDR42E1 for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    SDRE: Short chain dehydrogenase/reductase superfamily / Extended SDR fold

    2 InterPro protein domains:
     IPR002225 3Beta_OHSteriod_DH/Estase
     IPR016040 NAD(P)-bd_dom

    Graphical View of Domain Structure for InterPro Entry Q8WUS8

    ProtoNet protein and cluster: Q8WUS8

    1 Blocks protein domain: IPB002225 3-beta hydroxysteroid dehydrogenase/isomerase

    UniProtKB/Swiss-Prot: D42E1_HUMAN, Q8WUS8
    Similarity: Belongs to the 3-beta-HSD family


    SDR42E1 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,
    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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

         Enzyme Numbers (IUBMB): EC 1.1.12 EC 1.1.1.-1 EC 1.1.1.372

         Gene Ontology (GO): 5 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003824catalytic activity ----
    GO:00038543-beta-hydroxy-delta5-steroid dehydrogenase activity IEA--
    GO:0008831dTDP-4-dehydrorhamnose reductase activity ----
    GO:0016616oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor ----
    GO:0050662coenzyme binding ----
         
    SDR42E1 for ontologies           About GeneDecksing


    Phenotypes:
         3 GenomeRNAi human phenotypes for SDR42E1:
     Increased S DNA content  Increased number of mitotic ce  Synthetic lethal with Ras 

    Animal Models:
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    (Pathways according to EMD Millipore, 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 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 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SDR42E1

    STRING Interaction Network Preview (showing 3 interactants - click image to see more details)

    3 Interacting proteins for SDR42E1 (ENSP000003324074) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    UBCENSP000003448184STRING: ENSP00000344818
    FDFT1ENSP000002205844STRING: ENSP00000220584
    LSSENSP000003487624STRING: ENSP00000348762
    About this table

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006694steroid biosynthetic process IEA--
    GO:0009058biosynthetic process ----
    GO:0044237cellular metabolic process ----
    GO:0045226extracellular polysaccharide biosynthetic process ----
    GO:0055114oxidation-reduction process ----

    SDR42E1 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, 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 SDR42E1 (D42E1)

    Search CenterWatch for drugs/clinical trials and news about SDR42E1 / D42E1

    (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,
    Conferences by KenesGroup, 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, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for SDR42E1 gene: 
    NM_145168.2  

    Unigene Cluster for SDR42E1:

    Short chain dehydrogenase/reductase family 42E, member 1
    Hs.87779  [show with all ESTs]
    Unigene Representative Sequence: NM_145168
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000328945(uc002fgu.3) ENST00000532128 ENST00000534209
    miRNA
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    hsa-miR-301b hsa-miR-562 hsa-miR-301a hsa-miR-3921 hsa-miR-3666 hsa-miR-4295 hsa-miR-454 hsa-miR-617
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    Inhib. RNA
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    Additional mRNA sequence: 

    AF161368.1 AK026740.1 AK315652.1 BC019670.1 

    3 DOTS entries:

    DT.208969  DT.95193026  DT.97814648 

    24/25 AceView cDNA sequences (see all 25):

    AK026740 BC019670 AI914083 AA250962 CB851753 NM_145168 AA865247 AW294305 
    AA257052 BM977094 BM008719 BG288794 BX110035 AA257145 AI344431 BI752834 
    BX482154 CB852230 BU535625 BU622549 BU539135 BM836547 AA741195 AA193261 

    GeneLoc Exon Structure

    3 Alternative Splicing Database (ASD) splice patterns (SP) for SDR42E1    About this scheme

    ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5a · 5b · 5c
    SP1:                          -                     
    SP2:                                                
    SP3:              -           -                     


    ECgene alternative splicing isoforms for SDR42E1

    (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

    SDR42E1 expression in normal human tissues (normalized intensities)      SDR42E1 embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GCTCCAGCTA
    SDR42E1 Expression
    About this image


    SDR42E1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/5 selected tissues (see all 5) fully expand
     
     Neural Tube (Nervous System)    fully expand to see all 2 entries
             Metencephalon
     
     Bone (Muscoskeletal System)
             skeleton   
     
     Cartilage (Muscoskeletal System)
             skeleton   
     
     Limb (Muscoskeletal System)
     
     Liver (Hepatobiliary System)

    See SDR42E1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SDR42E1

    SOURCE GeneReport for Unigene cluster: Hs.87779
        SABiosciences Custom PCR Arrays for SDR42E1
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    In Situ
    Assay Products:
     

     
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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 SDR42E1 gene from 9/16 species (see all 16)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Sdr42e11 , 5 short chain dehydrogenase/reductase family 42E, member more1, 5 78.88(n)1
    79.64(a)1
      8 (64.69 cM)5
    740321  NM_028725.31  NP_083001.11 
     1176613995 
    chicken
    (Gallus gallus)
    Aves SDR42E11 short chain dehydrogenase/reductase family 42E, member more 69.23(n)
    71.03(a)
      415806  XM_414167.3  XP_414167.1 
    lizard
    (Anolis carolinensis)
    Reptilia SDR42E16
    Uncharacterized protein
    61(a)
    1 ↔ 1
    GL344902.1(5772-7020)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.325362 Xenopus laevis transcribed sequence with weak similarity more 73.9(n)    BJ619652.1 
    zebrafish
    (Danio rerio)
    Actinopterygii sdr42e11 short chain dehydrogenase/reductase family 42E, member more 62.65(n)
    65.15(a)
      565964  NM_001037690.1  NP_001032779.1 
    worm
    (Caenorhabditis elegans)
    Secernentea hsd-36
    hsd-26
    (see all 3)
    Protein HSD-2
    (see all 3)
    26(a)
    24(a)
    (see all 3)
    many ↔ many
    many ↔ many
    (see all 3)
    X(5009300-5011222)
    X(5005269-5007024)
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes ERG266
    C-3 sterol dehydrogenase, catalyzes the second of ...
    30(a)
    1 → many
    VII(495453-496502)
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT2G336301 Rossmann-fold NAD(P)-binding domain-containing protein 50.76(n)
    46.09(a)
      817929  NM_128923.4  NP_180921.1 
    rice
    (Oryza sativa)
    Liliopsida Os02g07152001 hypothetical protein 52.75(n)
    50.78(a)
      4330519  NM_001054459.1  NP_001047924.1 


    ENSEMBL Gene Tree for SDR42E1 (if available)
    TreeFam Gene Tree for SDR42E1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SDR42E1 gene
    HSD3B22  SDR42E22  HSD3B72  HSD3B12  NSDHL2  
    2 SIMAP similar genes for SDR42E1 using alignment to 2 protein entries:     D42E1_HUMAN (see all proteins):
    SDR42E2    NSDHL

    SDR42E1 for paralogs           About GeneDecksing


    5/8 Pseudogenes.org Pseudogenes for SDR42E1 (see all 8)
    PGOHUM00000240820 PGOHUM00000258382 PGOHUM00000258383 PGOHUM00000258389 PGOHUM00000258390


    (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) 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

    10/530 SNPs in SDR42E1 are shown (see all 530)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 16 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs80630261,2
    C,F,A,H--82030848(+) gcagaA/Gaaagc 1 -- int113Minor allele frequency- G:0.26NS EA NA WA CSA 690
    rs1845708431,2
    --82030877(+) GGCAAA/CGTTTC 1 -- int10--------
    rs169561611,2
    C,F,H--82030908(+) CACATC/GGGGCC 1 -- int114Minor allele frequency- G:0.15NA NS EA WA CSA 698
    rs556528141,2
    C,F--82030947(+) ACCATC/GTCCCT 1 -- int13Minor allele frequency- G:0.09WA CSA 122
    rs590021771,2
    C--82030950(+) ATCTCC/TCTCTT 1 -- int10--------
    rs599614581,2
    C,F--82030951(+) TCTCCG/CTCTTC 1 -- int14Minor allele frequency- C:0.38WA CSA 124
    rs1156871921,2
    F--82031037(+) TGGAAT/GGACAC 1 -- int11Minor allele frequency- G:0.01WA 118
    rs1161899041,2
    C,F--82031116(+) TGGGGA/TTGAGG 1 -- int11Minor allele frequency- T:0.01WA 118
    rs1388483121,2
    --82031166(+) ATATGC/TGTTAA 1 -- int10--------
    rs1406224701,2
    --82031188(+) TGCAAA/GAGCTT 1 -- int10--------

    HapMap Linkage Disequilibrium report for SDR42E1 (82031221 - 82045093 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for SDR42E1:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2660861CNV Deletion23128226
    nsv907012CNV Gain21882294

    SABiosciences Cancer Mutation PCR Assays
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    DNA2.0 Custom Variant and Variant Library Synthesis for SDR42E1

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    2 diseases for SDR42E1:    About MalaCards
    tuberculosis    hepatitis


    SDR42E1 for disorders           About GeneDecksing


    Export disorders for SDR42E1 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 SDR42E1 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with SDR42E1)
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    1. The SDR (short-chain dehydrogenase/reductase and related enzymes) nomenclature initiative. (PubMed id 19027726)1, 2, 3 Persson B.... Oppermann U. (2009)
    2. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    3. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (2007)
    4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
    5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (2004)
    6. 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. (2002)
    7. Hepatitis C virus core protein interacts with 14-3-3 protein and activates the kinase Raf-1. (PubMed id )2 Aoki H.... Hino O. (2000)
    8. 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)2 Zhang Q.-H.... Chen Z. (2000)
    9. Normalization and subtraction: two approaches to facilitate gene discovery. (PubMed id 8889548)1 Bonaldo M.F.... Soares M.B. (1996)

    (in PubMed, OMIM, and NCBI Bookshelf)
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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: 93517 HGNC: 29834 AceView: HSPC105 Ensembl:ENSG00000184860 euGenes: HUgn93517
    ECgene: SDR42E1 H-InvDB: SDR42E1

    (According to HUGE)
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      --

    (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 SDR42E1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for SDR42E1 gene:
    Search GeneIP for patents involving SDR42E1

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



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