Msgn1 (mesogenin 1) - Rat Genome Database

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Gene: Msgn1 (mesogenin 1) Mus musculus
Analyze
Symbol: Msgn1
Name: mesogenin 1
RGD ID: 1321039
MGI Page MGI
Description: Enables DNA-binding transcription activator activity, RNA polymerase II-specific and chromatin binding activity. Acts upstream of or within segment specification and somitogenesis. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Is expressed in several structures, including allantois; embryo mesoderm; primitive streak; tail; and unsegmented mesenchyme. Orthologous to human MSGN1 (mesogenin 1).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: mesogenin-1; MGC151373; Ms; Msgn; paraxial mesoderm-specific expression and regulatory capacities; paraxial mesoderm-specific mesogenin1; pMesogenin1; pMsgn1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391211,258,383 - 11,258,949 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1211,258,361 - 11,258,973 (-)EnsemblGRCm39 Ensembl
GRCm381211,208,382 - 11,208,948 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1211,208,360 - 11,208,972 (-)EnsemblGRCm38mm10GRCm38
MGSCv371211,215,188 - 11,215,754 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361211,234,725 - 11,235,291 (-)NCBIMGSCv36mm8
Celera1211,552,514 - 11,553,080 (-)NCBICelera
Cytogenetic Map12A1.1NCBI
cM Map125.58NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleoplasm  (TAS)
nucleus  (IBA)

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. MGDs mouse GO annotations MGD data from the GO Consortium
2. MGD IEA MGD IEA
3. Mouse MP Annotation Import Pipeline RGD automated import pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10837126   PMID:11124811   PMID:11562355   PMID:11641270   PMID:12477932   PMID:14681479   PMID:15618518   PMID:16543246   PMID:16602821   PMID:17634284   PMID:17668009   PMID:18157121  
PMID:18287559   PMID:18563087   PMID:18579680   PMID:19056682   PMID:19521566   PMID:19906845   PMID:21267068   PMID:21750544   PMID:21873635   PMID:22546692   PMID:22954964   PMID:24952961  
PMID:25152336   PMID:25371364   PMID:26237517   PMID:26305214   PMID:26666435   PMID:27144312   PMID:28893950   PMID:30661984   PMID:31235634   PMID:32561646   PMID:32597756   PMID:32907848  
PMID:33210601   PMID:34446717   PMID:35276131   PMID:35686648   PMID:35950911   PMID:36123354  


Genomics

Comparative Map Data
Msgn1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391211,258,383 - 11,258,949 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1211,258,361 - 11,258,973 (-)EnsemblGRCm39 Ensembl
GRCm381211,208,382 - 11,208,948 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1211,208,360 - 11,208,972 (-)EnsemblGRCm38mm10GRCm38
MGSCv371211,215,188 - 11,215,754 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361211,234,725 - 11,235,291 (-)NCBIMGSCv36mm8
Celera1211,552,514 - 11,553,080 (-)NCBICelera
Cytogenetic Map12A1.1NCBI
cM Map125.58NCBI
MSGN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38217,816,460 - 17,817,798 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl217,816,460 - 17,817,798 (+)EnsemblGRCh38hg38GRCh38
GRCh37217,997,727 - 17,999,065 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36217,861,267 - 17,861,848 (+)NCBINCBI36Build 36hg18NCBI36
Celera217,878,053 - 17,878,634 (+)NCBICelera
Cytogenetic Map2p24.2NCBI
HuRef217,772,843 - 17,773,424 (+)NCBIHuRef
CHM1_1217,927,062 - 17,927,643 (+)NCBICHM1_1
T2T-CHM13v2.0217,848,194 - 17,849,532 (+)NCBIT2T-CHM13v2.0
Msgn1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8639,631,868 - 39,632,508 (-)NCBIGRCr8
mRatBN7.2633,912,787 - 33,913,427 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl633,912,787 - 33,913,427 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx634,212,134 - 34,212,774 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0634,528,073 - 34,528,713 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0633,999,060 - 33,999,700 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0636,876,165 - 36,876,805 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl636,876,165 - 36,876,805 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0646,626,278 - 46,626,918 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4634,642,722 - 34,643,362 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera633,319,681 - 33,320,321 (-)NCBICelera
Cytogenetic Map6q15NCBI
Msgn1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955469617,029 - 617,610 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955469617,029 - 617,610 (+)NCBIChiLan1.0ChiLan1.0
MSGN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v212108,710,407 - 108,712,710 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A108,714,373 - 108,716,676 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A17,797,769 - 17,799,243 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A17,926,024 - 17,927,301 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A17,926,027 - 17,926,608 (+)Ensemblpanpan1.1panPan2
MSGN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11713,266,674 - 13,267,968 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1713,266,674 - 13,267,240 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1713,218,674 - 13,219,870 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01713,403,492 - 13,404,688 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1713,403,492 - 13,404,058 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11713,261,563 - 13,262,765 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01713,272,831 - 13,274,030 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01713,299,019 - 13,300,215 (+)NCBIUU_Cfam_GSD_1.0
Msgn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629257,694,963 - 57,710,008 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649313,129,883 - 13,130,464 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649313,129,883 - 13,130,464 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MSGN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl3120,034,043 - 120,034,624 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.13120,033,980 - 120,034,624 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23128,181,840 - 128,182,492 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MSGN1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11489,852,082 - 89,855,540 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1489,853,400 - 89,853,981 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604522,359,570 - 22,361,544 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Msgn1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624738756,679 - 757,258 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624738756,679 - 757,278 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Msgn1
15 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:103
Count of miRNA genes:95
Interacting mature miRNAs:102
Transcripts:ENSMUST00000049877
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
11039525Tbbr2_mTrypanosoma brucei brucei response 2 (mouse)12122418579Mouse
1301393Dyscalc3_mdystrophic cardiac calcinosis 3 (mouse)Not determined12122418579Mouse
10402496Lmr22_mleishmaniasis resistance 22 (mouse)Not determined12122418579Mouse
1301143Skull17_mskull morphology 17 (mouse)Not determined12122418579Mouse
1357519Vtbt12_mvertebral trabecular bone trait 12 (mouse)Not determined12124662697Mouse
1301655Bmd12_mbone mineral density 12 (mouse)Not determined12124662697Mouse
4141296Femwf9_mfemur work to failure 9 (mouse)Not determined127920733Mouse
4141436Chldq7_mcholesterol and HDL QTL 7 (mouse)Not determined12127920733Mouse
12910983Pifs1_mpeptide-induced fatal syndrome 1 (mouse)12130433078Mouse
1301925Ath6_matherosclerosis 6 (mouse)Not determined12132758756Mouse
1301207Circp1_mcircadian photosensitivity 1 (mouse)Not determined12133430339Mouse
4141660Nbwa1_mNZB and NZW autoimmunity 1 (mouse)Not determined1234013434340302Mouse
26884410Bzwq15_mbi-zygomatic width QTL 15, 16 week (mouse)12365000029749999Mouse
4142234Tmc1m3_mTmc1 modifier 3 (mouse)Not determined12541844077031203Mouse
1301163Eae16_msusceptibility to experimental allergic encephalomyelitis 16 (mouse)Not determined12772315841723301Mouse
13208568Bmiq11_mbody mass index QTL 11 (mouse)12805000040049999Mouse
1301037Cd4ts5_mCD4 T cell subset 5 (mouse)Not determined12835244442352581Mouse
1301723Fcsa7_mfemoral cross-sectional area 7 (mouse)Not determined12949100443491112Mouse
27226753Femd7_mfemur midshaft diameter 7, 10 week (mouse)12955000084146774Mouse
12792982Fbmd4_mfemoral bone mineral density 4, females only (mouse)121004319424365136Mouse
14746972Manh72_mmandible shape 72 (mouse)121061528144615281Mouse
10401249Bglu15_mblood glucose level 15 (mouse)Not determined121062064244620809Mouse
13524843Ppiq8_mprepulse inhibition QTL 8 (mouse)121104319450945796Mouse

Markers in Region
UniSTS:491418  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381211,208,360 - 11,208,972UniSTSGRCm38
MGSCv371211,215,166 - 11,215,778UniSTSGRCm37
Celera1211,552,492 - 11,553,104UniSTS
Cytogenetic Map12A2UniSTS
Msgn1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map12A2UniSTS
cM Map125.58UniSTS
Msgn1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map12A2UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000049877   ⟹   ENSMUSP00000055001
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1211,258,361 - 11,258,973 (-)Ensembl
GRCm38.p6 Ensembl1211,208,360 - 11,208,972 (-)Ensembl
RefSeq Acc Id: NM_019544   ⟹   NP_062417
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391211,258,383 - 11,258,949 (-)NCBI
GRCm381211,208,382 - 11,208,948 (-)ENTREZGENE
MGSCv371211,215,188 - 11,215,754 (-)RGD
Celera1211,552,514 - 11,553,080 (-)RGD
cM Map12 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_062417 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAF70375 (Get FASTA)   NCBI Sequence Viewer  
  AAI16997 (Get FASTA)   NCBI Sequence Viewer  
  EDK98431 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000055001
  ENSMUSP00000055001.2
GenBank Protein Q9JK54 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_062417   ⟸   NM_019544
- UniProtKB: Q9JK54 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000055001   ⟸   ENSMUST00000049877
Protein Domains
bHLH

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9JK54-F1-model_v2 AlphaFold Q9JK54 1-188 view protein structure


Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1860483 AgrOrtholog
Ensembl Genes ENSMUSG00000047002 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000049877 ENTREZGENE
  ENSMUST00000049877.3 UniProtKB/Swiss-Prot
Gene3D-CATH 4.10.280.10 UniProtKB/Swiss-Prot
InterPro bHLH_dom UniProtKB/Swiss-Prot
  HLH_DNA-bd_sf UniProtKB/Swiss-Prot
  Mesogenin/MesP UniProtKB/Swiss-Prot
KEGG Report mmu:56184 UniProtKB/Swiss-Prot
MGD MGI:1860483 ENTREZGENE
NCBI Gene 56184 ENTREZGENE
PANTHER MESOGENIN-1 UniProtKB/Swiss-Prot
  PTHR20937 UniProtKB/Swiss-Prot
Pfam HLH UniProtKB/Swiss-Prot
PhenoGen Msgn1 PhenoGen
PROSITE BHLH UniProtKB/Swiss-Prot
SMART HLH UniProtKB/Swiss-Prot
Superfamily-SCOP SSF47459 UniProtKB/Swiss-Prot
UniProt MSGN1_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE