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

SEC22C Gene

protein-coding   GIFtS: 43
GCID: GC03M042589

SEC22 vesicle trafficking protein homolog C (S. cerevisiae)

(Previous name: SEC22 vesicle trafficking protein-like 3 (S. cerevisiae)...)
(Previous symbol: SEC22L3)
 Explore 3 diseases affiliated with
SEC22C via our new
 Human Malady Compendium 
Biological research products
for SEC22C
    

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

Aliases
SEC22 Vesicle Trafficking Protein Homolog C (S. Cerevisiae)1 2     SEC22 Vesicle Trafficking Protein-Like 32
SEC22L31 2 3     Secretion Deficient 22C2
MGC132611     Vesicle-Trafficking Protein SEC22c2
MGC53731     SEC22 Vesicle-Trafficking Protein Homolog C3
SEC22 Vesicle Trafficking Protein-Like 3 (S. Cerevisiae)1     SEC22 Vesicle-Trafficking Protein-Like 33

External Ids:    HGNC: 168281   Entrez Gene: 91172   Ensembl: ENSG000000931837   OMIM: 6040285   UniProtKB: Q9BRL73   

Export aliases for SEC22C gene to outside databases

Previous GC identifers: GC03M041894 GC03M042565


(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 SEC22C:
This gene encodes a member of the SEC22 family of vesicle trafficking proteins. The encoded protein is localized to the
endoplasmic reticulum and may play a role in the early stages of ER-Golgi protein trafficking. Alternatively spliced
transcript variants encoding multiple isoforms have been observed for this gene. (provided by RefSeq, Jan 2011)

UniProtKB/Swiss-Prot: SC22C_HUMAN, Q9BRL7
Function: May be involved in vesicle transport between the ER and the Golgi complex




(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_000003.11  NC_018914.1  NT_022517.18  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SEC22C gene promoter:
         HEN1   AP-4   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): SEC22C promoter sequence
   Search SABiosciences Chromatin IP Primers for SEC22C

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SEC22C


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

Entrez Gene cytogenetic band: 3p22.1   Ensembl cytogenetic band:  3p22.1   HGNC cytogenetic band: 3p24.3-p22.1

SEC22C Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SEC22C gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03M042589:  view genomic region     (about GC identifiers)

Start:
42,589,461 bp from pter      End:
42,642,572 bp from pter
Size:
53,112 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: SC22C_HUMAN, Q9BRL7 (See protein sequence)
Recommended Name: Vesicle-trafficking protein SEC22c  
Size: 303 amino acids; 34269 Da
Subcellular location: Endoplasmic reticulum membrane; Multi-pass membrane protein
Secondary accessions: O95152 Q68CX3 Q6UW18
Alternative splicing: 3 isoforms:  Q9BRL7-1   Q9BRL7-2   Q9BRL7-3   

Explore the universe of human proteins at neXtProt for SEC22C: NX_Q9BRL7

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9BRL7

  • SEC22C Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (4 alternative transcripts): 
    NP_001188501.1  NP_001188513.1  NP_004197.1  NP_116752.1  

    ENSEMBL proteins: 
     ENSP00000415969   ENSP00000414576   ENSP00000273156   ENSP00000407564   ENSP00000389589  
     ENSP00000264454   ENSP00000391170   ENSP00000373256   ENSP00000397170   ENSP00000404987  
     ENSP00000411725   ENSP00000391957   ENSP00000408242   ENSP00000439845  

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    Novus Biologicals SEC22C Proteins
    Novus Biologicals SEC22C Lysate
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    Browse ProSpec Recombinant Proteins
    Uscn Proteins for SEC22C

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005783endoplasmic reticulum TAS9501016
    GO:0005789endoplasmic reticulum membrane IEA--
    GO:0016020membrane ----
    GO:0016021integral to membrane IEA--


    SEC22C 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

    SEC22C for domains           About GeneDecksing

    2 InterPro domains/families:
     IPR010908 Longin_dom
     IPR011012 Longin-like_dom

    Graphical View of Domain Structure for InterPro Entry Q9BRL7

    ProtoNet protein and cluster: Q9BRL7

    UniProtKB/Swiss-Prot: SC22C_HUMAN, Q9BRL7
    Similarity: Belongs to the synaptobrevin family
    Similarity: Contains 1 longin 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

    Function Summary:

         UniProtKB/Swiss-Prot: SC22C_HUMAN, Q9BRL7
    Function: May be involved in vesicle transport between the ER and the Golgi complex

    miRNA
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    (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 SEC22C

    Gene Ontology (GO): 3 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006810transport ----
    GO:0006888ER to Golgi vesicle-mediated transport TAS9501016
    GO:0015031protein transport IEA--


    SEC22C 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 SEC22C
    Search CenterWatch for drugs/clinical trials and news about SEC22C / SC22C 

    (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 SEC22C gene (4 alternative transcripts): 
    NM_001201572.1  NM_001201584.1  NM_004206.3  NM_032970.3  

    Unigene Cluster for SEC22C:

    SEC22 vesicle trafficking protein homolog C (S. cerevisiae)
    Hs.445892  [show with all ESTs]
    Unigene Representative Sequence: NM_032970
    17 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000451653(uc003clj.3) ENST00000423701 ENST00000273156(uc003clh.3 uc010hic.3 uc011azo.2)
    ENST00000417572(uc003cli.3) ENST00000449617 ENST00000264454 ENST00000456515
    ENST00000493107 ENST00000383750 ENST00000450981 ENST00000445388 ENST00000454141
    ENST00000416880 ENST00000487701 ENST00000420163 ENST00000456222 ENST00000536332


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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat SEC22C
    8/25 QIAGEN miScript miRNA Assays for microRNAs that regulate SEC22C (see all 25):
    hsa-miR-30c hsa-miR-30d hsa-miR-888* hsa-miR-103a hsa-miR-10b* hsa-miR-548m hsa-miR-30a hsa-miR-204
    SwitchGear 3'UTR luciferase reporter plasmidSEC22C 3' UTR sequence
    Inhib. RNA
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SEC22C (see all 4)
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    Additional cDNA sequence: 

    AF039568.1 AK074576.1 AK292856.1 AK293133.1 AY359041.1 BC006178.1 BC018437.1 CR749670.1 

    16 DOTS entries:

    DT.100024662  DT.100789027  DT.415411  DT.100774722  DT.100675624  DT.95303168  DT.97776290  DT.100742609 
    DT.120908124  DT.120908200  DT.120908182  DT.100774721  DT.102843513  DT.75172280  DT.120908144  DT.92426366 

    24/260 AceView cDNA sequences (see all 260):

    CA443113 AI436137 BC006178 AI142871 AW172956 AI042353 CA414735 AI679480 
    BM835567 AV708575 BM312898 BU621706 NM_004206 AI636504 CB856834 AW611774 
    BM996144 AA988382 BC018437 AA587335 AW294255 BI906303 BQ001179 NM_032970 

    GeneLoc Exon Structure

    5/16 Alternative Splicing Database (ASD) splice patterns (SP) for SEC22C (see all 16)    About this scheme

    ExUns: 1a · 1b ^ 2a · 2b · 2c · 2d · 2e · 2f · 2g · 2h ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8a · 8b ^ 9 ^ 10a · 10b · 10c · 10d ^ 11 ^ 12a · 12b ^
    SP1:                                                              -     -                 -     -     -     -     -                                             
    SP2:                                                              -     -                 -     -     -     -     -                                             
    SP3:              -     -     -     -     -     -     -     -     -     -                 -     -     -     -     -                                             
    SP4:                                                              -     -                 -     -     -     -     -                                             
    SP5:                                                              -     -                 -     -     -     -     -                                             

    ExUns: 13 ^ 14 ^ 15
    SP1:        -         
    SP2:                  
    SP3:                  
    SP4:                  
    SP5:  -     -         


    ECgene alternative splicing isoforms for SEC22C

    (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

    SEC22C expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TTACACAAGC

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

    About this image
    See SEC22C Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SEC22C

    SOURCE GeneReport for Unigene cluster: Hs.445892

    UniProtKB/Swiss-Prot: SC22C_HUMAN, Q9BRL7
    Tissue specificity: Ubiquitously expressed

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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 SEC22C gene from 6/19 species (see all 19)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves SEC22C1 SEC22 vesicle trafficking protein homolog C (S. cerevisiae) 71.18(n)
    67.33(a)
      420387  XM_418493.3  XP_418493.1 
    lizard
    (Anolis carolinensis)
    Reptilia SEC22C6
    --
    65(a)
    1 ↔ 1
    6(2614823-2619988)
    zebrafish
    (Danio rerio)
    Actinopterygii sec22c1 SEC22 vesicle trafficking protein homolog C (S. cerevisiae) 59.19(n)
    49.83(a)
      558856  XM_702251.3  XP_707343.1 
    worm
    (Caenorhabditis elegans)
    Secernentea sec-226
    --
    19(a)
    1 → many
    X(1035543-1037064)
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons SEC226
    AT5G522706
    vesicle transport protein SEC22
    20(a)
    17(a)
    many ↔ many
    many ↔ many
    1(4010779-4013125)
    5(21221643-21222600)
    rice
    (Oryza sativa)
    Liliopsida --
    --
    (see all 4)
    25.3 kDa vesicle transport protein, putative, expr...
    25.3 kDa vesicle transport protein, putative, expr...
    (see all 4)
    29(a)
    22(a)
    (see all 4)
    many ↔ many
    many ↔ many
    (see all 4)
    1(7436788-7442252)
    6(5011362-5015658)


    ENSEMBL Gene Tree for SEC22C (if available)
    TreeFam Gene Tree for SEC22C (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SEC22C gene
    SEC22A2  
    1 SIMAP similar gene for SEC22C using alignment to 10 protein entries:     SC22C_HUMAN (see all proteins):
    SEC22A

    SEC22C 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

    10/762 NCBI SNPs in SEC22C are shown (see all 762    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 3 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1861410041,2
    --42588994(+) GAGGAC/TAGTGC 4 -- ds50010--------
    rs1394151101,2
    --42589018(+) CTGGGA/TATTTT 4 -- ds50010--------
    rs1434099171,2
    --42589038(+) TATAGA/GAACAG 4 -- ds50010--------
    rs794095391,2
    C,F,--42589074(+) GGCTGG/CAAACC 4 -- ds50011Minor allele frequency- C:0.03NA 120
    rs1914013331,2
    --42589159(+) CCTTCA/CCAGTA 4 -- ds50010--------
    rs730713781,2
    --42589165(+) CAGTAA/GACAAG 4 -- ds50010--------
    rs1841501171,2
    --42589170(+) GACAAC/GAGCCC 4 -- ds50010--------
    rs1471793581,2
    --42589175(+) GAGCCC/TAAAAC 4 -- ds50010--------
    rs1403829281,2
    --42589320(+) CCTTGA/CGCCTG 4 -- ds50010--------
    rs771269021,2
    C,F,--42589321(+) CTTGCG/ACCTGT 4 -- ds50011Minor allele frequency- A:0.08WA 118

    HapMap Linkage Disequilibrium report for SEC22C (42589461 - 42642572 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for SEC22C: --

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SEC22C
    DNA2.0 Custom Variant and Variant Library Synthesis for SEC22C

    (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

    SEC22C for disorders           About GeneDecksing

    OMIM gene information: 604028    OMIM disorders: --

    3 diseases for SEC22C:    About MalaCards
    hermansky-pudlak syndrome    malaria    alcoholism


    Export disorders for SEC22C 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 SEC22C gene, integrated from 9 sources (see all 16):
    (articles sorted by number of sources associating them with SEC22C)
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    1. Hsec22c: a homolog of yeast Sec22p and mammalian rsec22a and msec22b/ERS-24. (PubMed id 9501016)1, 2, 3 Tang B.L....Hong W. (1998)
    2. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)1, 2 Clark H.F.... Gray A.M. (2003)
    3. The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005)2 Bechtel S.... Schupp I. (2007)
    4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
    5. 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)
    6. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (2004)
    7. 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)
    8. Topological restriction of SNARE-dependent membrane fusion. (PubMed id 11001058)3 Parlati F....Rothman J.E. (2000)
    9. CHMP1 functions as a member of a newly defined family of vesicle trafficking proteins. (PubMed id 11559748)9 Howard T.L....Hollenberg S.M. (2001)
    10. Hydrophobic profiles of the tail anchors in SLMAP dic tate subcellular targeting. (PubMed id 19538755)9 Byers J.T....Tuana B.S. (2009)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 9117 HGNC: 16828 AceView: SEC22L3 Ensembl:ENSG00000093183 euGenes: HUgn9117
    ECgene: SEC22C H-InvDB: SEC22C

    (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 SEC22C 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 SEC22C gene:
    Search GeneIP for patents involving SEC22C

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



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