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MESDC1 Gene

protein-coding   GIFtS: 44
GCID: GC15P081293

Mesoderm Development Candidate 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)
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Aliases
Mesoderm Development Candidate 11 2

External Ids:    HGNC: 135191   Entrez Gene: 592742   Ensembl: ENSG000001404067   OMIM: 6154665   UniProtKB: Q9H1K63   

Export aliases for MESDC1 gene to outside databases

Previous GC identifers: GC15P077250 GC15P074451 GC15P078869 GC15P079009 GC15P079081 GC15P058051


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for MESDC1 Gene:
MESDC1 (mesoderm development candidate 1) is a protein-coding gene. Diseases associated with MESDC1 include pyoderma, and pyoderma gangrenosum. An important paralog of this gene is TLN2.


(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_000015.10  NC_018926.2  NT_010194.18  
Regulatory elements:
   Regulatory transcription factor binding sites in the MESDC1 gene promoter:
         Pax-5   SREBP-1c   SREBP-1b   CREB   E2F   SREBP-1a   deltaCREB   FOXJ2 (long isoform)   FOXJ2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidMESDC1 promoter sequence
   Search Chromatin IP Primers for MESDC1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat MESDC1


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

Entrez Gene cytogenetic band: 15q13   Ensembl cytogenetic band:  15q25.1   HGNC cytogenetic band: 15q13

MESDC1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
MESDC1 gene location

GeneLoc information about chromosome 15         GeneLoc Exon Structure

GeneLoc location for GC15P081293:  view genomic region     (about GC identifiers)

Start:
81,293,295 bp from pter      End:
81,296,345 bp from pter
Size:
3,051 bases      Orientation:
plus 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: MESD1_HUMAN, Q9H1K6 (See protein sequence)
Recommended Name: Mesoderm development candidate 1  
Size: 362 amino acids; 37758 Da

Explore the universe of human proteins at neXtProt for MESDC1: NX_Q9H1K6

Explore proteomics data for MESDC1 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See MESDC1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_072088.1  
    ENSEMBL proteins: 
     ENSP00000267984  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    ProtoNet protein and cluster: Q9H1K6


    (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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         Gene Ontology (GO): 1 molecular function term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding ----
         
    MESDC1 for ontologies           About GeneDecksing


    Phenotypes:
         3 GenomeRNAi human phenotypes for MESDC1:
     Big cells  Increased gamma-H2AX phosphory  Synthetic lethal with Ras 

    Animal Models:
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    miRNA
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    miRTarBase miRNAs that target MESDC1:
    hsa-let-7c-5p (MIRT051859), hsa-mir-423-5p (MIRT038177), hsa-mir-9-5p (MIRT021487), hsa-mir-340-5p (MIRT019572), hsa-mir-335-5p (MIRT018702), hsa-let-7b-5p (MIRT052344)

    Block miRNA regulation of human, mouse, rat MESDC1 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate MESDC1 (see all 40):
    hsa-let-7d hsa-miR-574-3p hsa-miR-128 hsa-miR-548m hsa-let-7g hsa-miR-9 hsa-let-7a hsa-miR-508-5p
    SwitchGear 3'UTR luciferase reporter plasmidMESDC1 3' UTR sequence
    Inhib. RNA
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    (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
    cytosol1
    extracellular1
    mitochondrion1
    nucleus1
    plasma membrane1

    (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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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for MESDC1
    Interactions:

        Search GeneGlobe Interaction Network for MESDC1

    STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

    2 Interacting proteins for MESDC1 (Q9H1K63 ENSP000002679844) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    LRP6O755813, ENSP000002613494I2D: score=1 STRING: ENSP00000261349
    ELAVL1ENSP000003852694STRING: ENSP00000385269
    About this table

    (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
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for MESDC1 (MESD1)



    (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 MESDC1 gene: 
    NM_022566.2  

    Unigene Cluster for MESDC1:

    Mesoderm development candidate 1
    Hs.513071  [show with all ESTs]
    Unigene Representative Sequence: NM_022566
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000267984(uc002bfz.3)
    miRNA
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    Selected qRT-PCR Assays for microRNAs that regulate MESDC1 (see all 40):
    hsa-let-7d hsa-miR-574-3p hsa-miR-128 hsa-miR-548m hsa-let-7g hsa-miR-9 hsa-let-7a hsa-miR-508-5p
    SwitchGear 3'UTR luciferase reporter plasmidMESDC1 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat MESDC1
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      QuantiTect SYBR Green Assays in human, mouse, rat MESDC1
      QuantiFast Probe-based Assays in human, mouse, rat MESDC1

    Additional mRNA sequence: 

    AY007810.1 BC001373.2 BC084554.1 

    6 DOTS entries:

    DT.212169  DT.99982855  DT.100036331  DT.100813261  DT.97763492  DT.95182490 

    1 AceView cDNA sequence:

    AW136099 

    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™, 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)
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    MESDC1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TACTGGAGTA
    MESDC1 Expression
    About this image

    MESDC1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    MESDC1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.513071
        Custom PCR Arrays for MESDC1
    Primer
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    OriGene qPCR primer pairs and template standards for MESDC1
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for MESDC1

    (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 animals and fungi.

    Orthologs for MESDC1 gene from Selected species (see all 13)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Mesdc11 , 5 mesoderm development candidate 11, 5 90.88(n)1
    98.07(a)1
      7 (48.33 cM)5
    808891  NM_030705.41  NP_109630.11 
     838798735 
    chicken
    (Gallus gallus)
    Aves MESDC11 mesoderm development candidate 1 75.31(n)
    79.72(a)
      415473  XM_413848.4  XP_413848.1 
    lizard
    (Anolis carolinensis)
    Reptilia MESDC16
    mesoderm development candidate 1
    77(a)
    1 ↔ 1
    GL343332.1(841549-842607)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia MGC758472 hypothetical protein MGC75847 81.84(n)    BC061331.1 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC1000031481 mesoderm development candidate 1-like 70.35(n)
    72.52(a)
      100003148  XM_005166366.1  XP_005166423.1 
    worm
    (Caenorhabditis elegans)
    Secernentea Y18D10A.226
    Protein Y18D10A.22 (Y18D10A.22) mRNA, complete cds...
    5(a)
    many ↔ many
    I(12932037-12933751) WBGene00014864
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes SLA26
    Transmembrane actin-binding protein involved in me...
    7(a)
    1 → many
    XIV(188051-190957) YNL243W


    ENSEMBL Gene Tree for MESDC1 (if available)
    TreeFam Gene Tree for MESDC1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for MESDC1 gene
    TLN22  HIP12  HIP1R2  TLN12  

    MESDC1 for paralogs           About GeneDecksing



    (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 MESDC1 (see all 98)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 15 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1177617931,2
    F--81291900(+) CAGTTA/TTAAGT 1 -- us2k11Minor allele frequency- T:0.02NA 120
    rs1915558781,2
    --81291926(+) CCAGGC/TTTGAA 1 -- us2k10--------
    rs1838149761,2
    --81291941(+) CTGTTC/TATGGT 1 -- us2k10--------
    rs38033621,2
    C,F,H--81292020(+) GTCATC/ACTAGT 1 -- us2k1 tfbs320Minor allele frequency- A:0.17NA NS EA WA 2322
    rs101627411,2
    C,F--81292125(+) CTGTGT/GTGGGC 1 -- us2k14Minor allele frequency- G:0.12NA CSA WA 124
    rs1404121391,2
    --81292144(+) TTAGAA/GGACCT 1 -- us2k10--------
    rs101627261,2
    C,F--81292145(+) TAGAGG/AACCTG 1 -- us2k12Minor allele frequency- A:0.07WA NA 238
    rs1170177271,2
    C,F--81292150(+) GACCTG/ATTTCA 1 -- us2k11Minor allele frequency- A:0.01NA 120
    rs765987571,2
    F--81292160(+) AGGACT/CGCGTG 1 -- us2k11Minor allele frequency- C:0.04WA 118
    rs766926541,2
    C,F--81292164(+) CTGCGT/GGACTG 1 -- us2k12Minor allele frequency- G:0.05WA NA 238

    HapMap Linkage Disequilibrium report for MESDC1 (81293295 - 81296345 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for MESDC1:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv28677CNV Loss19812545
    nsv1637CNV Loss18451855

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing MESDC1
    DNA2.0 Custom Variant and Variant Library Synthesis for MESDC1

    (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.)
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    OMIM gene information: 615466    OMIM disorders: --

    2 diseases for MESDC1:    
    About MalaCards
    pyoderma    pyoderma gangrenosum

    1 disease from the University of Copenhagen DISEASES database for MESDC1:
    Pyoderma gangrenosum

    MESDC1 for disorders           About GeneDecksing

    Genetic Association Database (GAD): MESDC1

    Export disorders for MESDC1 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 MESDC1 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with MESDC1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Identification of mesoderm development (mesd) candidate genes by comparative mapping and genome sequence analysis. (PubMed id 11247670)1, 2, 3 Wines M.E.... Holdener B.C. (Genomics 2001)
    2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    3. Novel oncogenic function of mesoderm development candidate 1 and its regulation by MiR-574-3p in bladder cancer cell lines. (PubMed id 22179486)1 Tatarano S....Nakagawa M. (Int. J. Oncol. 2012)
    4. Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach. (PubMed id 19413330)2 Gauci S....Mohammed S. (Anal. Chem. 2009)
    5. Genome-wide association identifies the ABO blood group as a major locus associated with serum levels of soluble E-selectin. (PubMed id 19729612)4 Paterson A.D....Bull S.B. (Arterioscler. Thromb. Vasc. Biol. 2009)
    6. Ubiquitin-mediated proteolysis of HuR by heat shock. (PubMed id 19322201)1 Abdelmohsen K....Gorospe M. (EMBO J. 2009)
    7. Genome-wide association with select biomarker traits in the Framingham Heart Study. (PubMed id 17903293)4 Benjamin E.J....Vasan R.S. (BMC Med. Genet. 2007)
    8. Modulation of LRP6-mediated Wnt signaling by molecular chaperone Mesd. (PubMed id 16989816)1 Li Y....Bu G. (FEBS Lett. 2006)
    9. Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. (PubMed id 15146197)1 Brandenberger R.... Stanton L.W. (Nat. Biotechnol. 2004)
    10. 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. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    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: 59274 HGNC: 13519 AceView: MESDC1 Ensembl:ENSG00000140406 euGenes: HUgn59274
    ECgene: MESDC1 H-InvDB: MESDC1

    (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)
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    NameDescription
    PharmGKB entry for MESDC1 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 MESDC1 gene:
    Search GeneIP for patents involving MESDC1

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



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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