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MSGN1 Gene

protein-coding   GIFtS: 33
GCID: GC02P017997

Mesogenin 1

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(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
Mesogenin 11 2     pMsgn12 3
Paraxial Mesogenin1 2     MSOG2
Paraxial Mesoderm-Specific Mesogenin12 3     mesogenin-12
pMesogenin12 3     

External Ids:    HGNC: 149071   Entrez Gene: 3439302   Ensembl: ENSG000001513797   OMIM: 6122095   UniProtKB: A6NI153   

Export aliases for MSGN1 gene to outside databases

Previous GC identifers: GC02P017923 GC02P017772


(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 MSGN1 Gene:
MSGN1 (mesogenin 1) is a protein-coding gene. GO annotations related to this gene include protein dimerization activity. An important paralog of this gene is MESP1.

UniProtKB/Swiss-Prot: MSGN1_HUMAN, A6NI15
Function: Involved in specifying the paraxial, but not dorsal, mesoderm. May regulate the expression of T-box
transcription factors required for mesoderm formation and differentiation (By similarity)




(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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Regulatory elements:
   Regulatory transcription factor binding sites in the MSGN1 gene promoter:
         Nkx3-1   HOXA9B   HOXA9   Spz1   Evi-1   Meis-1b   Nkx3-1 v2   Cart-1   IRF-7A   Meis-1   
         Other transcription factors

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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat MSGN1


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

Entrez Gene cytogenetic band: 2p24.2   Ensembl cytogenetic band:  2p24.2   HGNC cytogenetic band: 2p24.2

MSGN1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
MSGN1 gene location

GeneLoc information about chromosome 2         GeneLoc Exon Structure

GeneLoc location for GC02P017997:  view genomic region     (about GC identifiers)

Start:
17,997,763 bp from pter      End:
17,998,368 bp from pter
Size:
606 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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: MSGN1_HUMAN, A6NI15 (See protein sequence)
Recommended Name: Mesogenin-1  
Size: 193 amino acids; 20778 Da

Explore the universe of human proteins at neXtProt for MSGN1: NX_A6NI15

Explore proteomics data for MSGN1 at MOPED


See MSGN1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_001099039.1  
ENSEMBL proteins: 
 ENSP00000281047  

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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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1 InterPro protein domain:
 IPR011598 bHLH_dom

Graphical View of Domain Structure for InterPro Entry A6NI15

ProtoNet protein and cluster: A6NI15

UniProtKB/Swiss-Prot: MSGN1_HUMAN, A6NI15
Similarity: Contains 1 bHLH (basic helix-loop-helix) domain


Find genes that share domains with MSGN1           About GenesLikeMe


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

     UniProtKB/Swiss-Prot Summary: MSGN1_HUMAN, A6NI15
Function: Involved in specifying the paraxial, but not dorsal, mesoderm. May regulate the expression of T-box
transcription factors required for mesoderm formation and differentiation (By similarity)

     Gene Ontology (GO): 2 molecular function terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0003677DNA binding IEA--
GO:0046983protein dimerization activity IEA--
     
Find genes that share ontologies with MSGN1           About GenesLikeMe


Phenotypes:
     7 MGI mutant phenotypes (inferred from 1 allele(MGI details for Msgn1):
 embryogenesis  growth/size/body  limbs/digits/tail  mortality/aging  muscle 
 nervous system  skeleton 

Find genes that share phenotypes with MSGN1           About GenesLikeMe

Animal Models:
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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 UniProtKB/Swiss-Prot
MSGN1_HUMAN, A6NI15: Nucleus (Potential)
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
nucleus3

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

GO IDQualified GO termEvidencePubMed IDs
GO:0005634nucleus IEA--

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(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 MSGN1
Interactions:

    Search GeneGlobe Interaction Network for MSGN1

Gene Ontology (GO): 5 biological process terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0001756somitogenesis IEA--
GO:0006351transcription, DNA-templated IEA--
GO:0006355regulation of transcription, DNA-templated IEA--
GO:0007379segment specification IEA--
GO:0030154cell differentiation IEA--

Find genes that share ontologies with MSGN1           About GenesLikeMe



(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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(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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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REFSEQ mRNAs for MSGN1 gene: 
NM_001105569.1  

1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000281047(uc010yjt.2)
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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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See probesets specificity/sensitivity at GeneAnnot
CGAP TAG: --


MSGN1 expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database
 selected tissues (see all 4) fully expand
 
 Primitive Streak (Early Embryonic Tissues)
         Mesendodermal-like cells
 
 NULL (Uncategorized)
         Mesoderm precursors
 
 Skeletal Muscle (Muscoskeletal System)    fully expand to see all 2 entries
         Myoblasts Mandibular Arch Muscles
 
 Eye (Sensory Organs)
         Retina
MSGN1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

MSGN1 Protein Expression
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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)
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This gene was present in the common ancestor of chordates.

Orthologs for MSGN1 gene from Selected species (see all 13)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Msgn11 , 5 mesogenin 11, 5 80.93(n)1
79.68(a)1
  12 (5.58 cM)5
561841  NM_019544.11  NP_062417.11 
 112083825 
chicken
(Gallus gallus)
Aves MSGN11 mesogenin 1 68.29(n)
69.51(a)
  395419  NM_204684.2  NP_990015.2 
lizard
(Anolis carolinensis)
Reptilia MSGN16
mesogenin 1
80(a)
1 ↔ 1
1(142994191-142994445)
African clawed frog
(Xenopus laevis)
Amphibia Xl.4832 Xenopus laevis MesP-related bHLH factor (Mespo) mRNA, more 76.14(n)    AF087650.1 
zebrafish
(Danio rerio)
Actinopterygii msgn12 mesogenin 1 81.29(n)   360135  AF409108.1 


ENSEMBL Gene Tree for MSGN1 (if available)
TreeFam Gene Tree for MSGN1 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for MSGN1 gene
MESP12  MESP22  

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(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 MSGN1 (see all 74)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 2 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1825783351,2
--17995834(+) AATTGC/TAAAGA 1 -- us2k10--------
rs1493779621,2
C--17995842(+) AGATAC/TGGAAC 1 -- us2k10--------
rs1865592371,2
--17995871(+) CCAACA/GAGTGG 1 -- us2k10--------
rs1436878771,2
C--17995875(+) CGAGTA/GGATAA 1 -- us2k10--------
rs1913906861,2
--17996133(+) TGAGGG/TATATA 1 -- us2k10--------
rs1115076461,2
F--17996182(+) GACATG/AAGCAC 1 -- us2k12Minor allele frequency- A:0.07CSA WA 120
rs1846347271,2
--17996210(+) CCACTA/GTACAA 1 -- us2k10--------
rs1907863141,2
--17996401(+) TATTAC/TTATTT 1 -- us2k10--------
rs1928923091,2
C--17996488(+) TTTCTC/TCCTTG 1 -- us2k10--------
rs1480975061,2
C--17996514(+) AAAATA/GTCATA 1 -- us2k10--------

HapMap Linkage Disequilibrium report for MSGN1 (17997763 - 17998368 bp)

Structural Variations
     Database of Genomic Variants (DGV) 1 variation for MSGN1:    About this table    
Variant IDTypeSubtypePubMed ID
dgv4062n71CNV Gain21882294

Site Specific Mutation Identification with PCR Assays
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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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OMIM gene information: 612209    OMIM disorders: --


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Genetic Association Database (GAD): MSGN1

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(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 MSGN1 gene integrated from 10 sources:
(articles sorted by number of sources associating them with MSGN1)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The bHLH class protein pMesogenin1 can specify paraxial mesoderm phenotypes. (PubMed id 10837126)1, 3 Yoon J.K....Wold B. (Dev. Biol. 2000)
  2. A genome-wide association study for blood lipid phenotypes in the Framingham Heart Study. (PubMed id 17903299)4 Kathiresan S....Cupples L.A. (BMC Med. Genet. 2007)
  3. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PubMed id 15815621)2 Hillier L.W.... Wilson R.K. (Nature 2005)
  4. The sequence of the human genome. (PubMed id 11181995)1 Venter J.C.... Zhu X. (Science 2001)

(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: 343930 HGNC: 14907 Ensembl:ENSG00000151379 euGenes: HUgn343930 ECgene: MSGN1
H-InvDB: MSGN1

(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 MSGN1 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 MSGN1 gene:
Search GeneIP for patents involving MSGN1

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, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
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 antibodies-online peptides for MSGN1
 antibodies-online proteins for MSGN1 (5 products)
       
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