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Aliases for MSGN1 Gene

Aliases for MSGN1 Gene

  • Mesogenin 1 2 3 5
  • Paraxial Mesoderm-Specific Mesogenin1 3 4
  • PMesogenin1 3 4
  • PMsgn1 3 4
  • Paraxial Mesogenin 2
  • Mesogenin-1 3
  • MSOG 3

External Ids for MSGN1 Gene

Previous GeneCards Identifiers for MSGN1 Gene

  • GC02P017923
  • GC02P017997

Summaries for MSGN1 Gene

GeneCards Summary for MSGN1 Gene

MSGN1 (Mesogenin 1) is a Protein Coding gene. Among its related pathways are Mesodermal Commitment Pathway. Gene Ontology (GO) annotations related to this gene include chromatin binding and transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific DNA binding. An important paralog of this gene is MESP1.

UniProtKB/Swiss-Prot for MSGN1 Gene

  • 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).

Additional gene information for MSGN1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for MSGN1 Gene

Genomics for MSGN1 Gene

GeneHancer (GH) Regulatory Elements for MSGN1 Gene

Promoters and enhancers for MSGN1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH02I017811 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE dbSUPER 550.8 -2.2 -2173 5.4 RB1 BMI1 YBX1 BATF IRF4 RFX5 ATF7 ETV6 BCLAF1 IKZF2 MSGN1 GEN1 LOC105373449 GC02M017816
GH02I017537 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 2.2 -275.0 -274950 7.3 MLX ZFP64 ARID4B SIN3A DMAP1 ZNF48 YY1 ETS1 SLC30A9 GLIS2 VSNL1 RAD51AP2 GEN1 MSGN1 GC02M017549
GH02I017587 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 2.5 -225.0 -224973 8 ATF1 PKNOX1 FOXA2 MLX ARID4B DMAP1 ETS1 SLC30A9 TCF12 ZNF766 VSNL1 GEN1 MSGN1 PIR36041 GC02M017549
GH02I018046 Enhancer 0.9 FANTOM5 ENCODE 2.4 +231.4 231363 2.5 PKNOX1 NFIB CEBPG ZFHX2 CTBP1 GATA3 RCOR1 FOS CHD2 SMARCE1 GEN1 MSGN1 GC02M018040 ENSG00000212455 GC02P018107 KCNS3
GH02I017786 Enhancer 0.2 FANTOM5 2.9 -29.9 -29918 0 GEN1 MSGN1 LOC105373449 SMC6 GC02M017752
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around MSGN1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the MSGN1 gene promoter:

Genomic Locations for MSGN1 Gene

Genomic Locations for MSGN1 Gene
chr2:17,816,496-17,817,101
(GRCh38/hg38)
Size:
606 bases
Orientation:
Plus strand
chr2:17,997,763-17,998,368
(GRCh37/hg19)

Genomic View for MSGN1 Gene

Genes around MSGN1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
MSGN1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for MSGN1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for MSGN1 Gene

Proteins for MSGN1 Gene

  • Protein details for MSGN1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    A6NI15-MSGN1_HUMAN
    Recommended name:
    Mesogenin-1
    Protein Accession:
    A6NI15

    Protein attributes for MSGN1 Gene

    Size:
    193 amino acids
    Molecular mass:
    20778 Da
    Quaternary structure:
    No Data Available

neXtProt entry for MSGN1 Gene

Post-translational modifications for MSGN1 Gene

No Post-translational modifications

Other Protein References for MSGN1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for MSGN1 Gene

Domains & Families for MSGN1 Gene

Gene Families for MSGN1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Transcription factors

Protein Domains for MSGN1 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for MSGN1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with MSGN1: view

No data available for UniProtKB/Swiss-Prot for MSGN1 Gene

Function for MSGN1 Gene

Molecular function for MSGN1 Gene

UniProtKB/Swiss-Prot 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).

Phenotypes From GWAS Catalog for MSGN1 Gene

Gene Ontology (GO) - Molecular Function for MSGN1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000978 RNA polymerase II proximal promoter sequence-specific DNA binding IBA --
GO:0001077 transcriptional activator activity, RNA polymerase II proximal promoter sequence-specific DNA binding IBA --
GO:0001228 transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific DNA binding IEA --
GO:0003677 DNA binding IEA --
GO:0003682 chromatin binding IEA --
genes like me logo Genes that share ontologies with MSGN1: view
genes like me logo Genes that share phenotypes with MSGN1: view

Animal Models for MSGN1 Gene

MGI Knock Outs for MSGN1:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for MSGN1 Gene

Localization for MSGN1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for MSGN1 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for MSGN1 gene
Compartment Confidence
nucleus 5

Gene Ontology (GO) - Cellular Components for MSGN1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA --
genes like me logo Genes that share ontologies with MSGN1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for MSGN1 Gene

Pathways & Interactions for MSGN1 Gene

SuperPathways for MSGN1 Gene

SuperPathway Contained pathways
1 Mesodermal Commitment Pathway
genes like me logo Genes that share pathways with MSGN1: view

Pathways by source for MSGN1 Gene

1 BioSystems pathway for MSGN1 Gene

Interacting Proteins for MSGN1 Gene

Gene Ontology (GO) - Biological Process for MSGN1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001707 mesoderm formation IBA --
GO:0001756 somitogenesis IBA,IEA --
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006366 transcription by RNA polymerase II IEA --
genes like me logo Genes that share ontologies with MSGN1: view

No data available for SIGNOR curated interactions for MSGN1 Gene

Drugs & Compounds for MSGN1 Gene

No Compound Related Data Available

Transcripts for MSGN1 Gene

mRNA/cDNA for MSGN1 Gene

(1) REFSEQ mRNAs :
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for MSGN1 Gene

No ASD Table

Relevant External Links for MSGN1 Gene

GeneLoc Exon Structure for
MSGN1
ECgene alternative splicing isoforms for
MSGN1

Expression for MSGN1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for MSGN1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for MSGN1 Gene

This gene is overexpressed in Esophagus - Mucosa (x19.7), Minor Salivary Gland (x9.5), Testis (x7.6), and Vagina (x6.5).

Protein differential expression in normal tissues from HIPED for MSGN1 Gene

This gene is overexpressed in Bone marrow mesenchymal stem cell (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for MSGN1 Gene



Protein tissue co-expression partners for MSGN1 Gene

NURSA nuclear receptor signaling pathways regulating expression of MSGN1 Gene:

MSGN1

SOURCE GeneReport for Unigene cluster for MSGN1 Gene:

Hs.705359
genes like me logo Genes that share expression patterns with MSGN1: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for MSGN1 Gene

Orthologs for MSGN1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for MSGN1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia MSGN1 33 34
  • 98.96 (n)
cow
(Bos Taurus)
Mammalia MSGN1 33 34
  • 85.84 (n)
rat
(Rattus norvegicus)
Mammalia Msgn1 33
  • 81.28 (n)
mouse
(Mus musculus)
Mammalia Msgn1 33 16 34
  • 80.93 (n)
dog
(Canis familiaris)
Mammalia MSGN1 33 34
  • 80.32 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia MSGN1 34
  • 71 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia MSGN1 34
  • 68 (a)
OneToOne
chicken
(Gallus gallus)
Aves MSGN1 34 33
  • 68.29 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia MSGN1 34
  • 80 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia msgn1 33
  • 59.19 (n)
Str.10200 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.483 33
zebrafish
(Danio rerio)
Actinopterygii msgn1 33 34
  • 62.96 (n)
Species where no ortholog for MSGN1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for MSGN1 Gene

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

Paralogs for MSGN1 Gene

Paralogs for MSGN1 Gene

genes like me logo Genes that share paralogs with MSGN1: view

Variants for MSGN1 Gene

Sequence variations from dbSNP and Humsavar for MSGN1 Gene

SNP ID Clin Chr 02 pos Variation AA Info Type
rs1002270443 -- 17,816,114(+) C/T upstream_transcript_variant
rs1002596874 -- 17,815,907(+) G/T upstream_transcript_variant
rs1003887196 -- 17,814,842(+) G/A/T upstream_transcript_variant
rs1004503766 -- 17,815,204(+) C/T upstream_transcript_variant
rs1004595252 -- 17,816,840(+) G/A coding_sequence_variant, missense_variant

Structural Variations from Database of Genomic Variants (DGV) for MSGN1 Gene

Variant ID Type Subtype PubMed ID
nsv997502 CNV gain 25217958
esv3891603 CNV gain 25118596
esv3589949 CNV gain 21293372

Variation tolerance for MSGN1 Gene

Residual Variation Intolerance Score: 30.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.71; 32.60% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for MSGN1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
MSGN1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for MSGN1 Gene

Disorders for MSGN1 Gene

Additional Disease Information for MSGN1

No disorders were found for MSGN1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for MSGN1 Gene

Publications for MSGN1 Gene

  1. The bHLH class protein pMesogenin1 can specify paraxial mesoderm phenotypes. (PMID: 10837126) Yoon JK … Wold B (Developmental biology 2000) 2 3 58
  2. A genome-wide association study for blood lipid phenotypes in the Framingham Heart Study. (PMID: 17903299) Kathiresan S … Cupples LA (BMC medical genetics 2007) 44 58
  3. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PMID: 15815621) Hillier LW … Wilson RK (Nature 2005) 4 58
  4. The sequence of the human genome. (PMID: 11181995) Venter JC … Zhu X (Science (New York, N.Y.) 2001) 3 58
  5. A census of human transcription factors: function, expression and evolution. (PMID: 19274049) Vaquerizas JM … Luscombe NM (Nature reviews. Genetics 2009) 3

Products for MSGN1 Gene

Sources for MSGN1 Gene

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