Myf5 (myogenic factor 5) - Rat Genome Database

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Gene: Myf5 (myogenic factor 5) Rattus norvegicus
Analyze
Symbol: Myf5
Name: myogenic factor 5
RGD ID: 1308322
Description: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in positive regulation of cell differentiation; regulation of transcription by RNA polymerase II; and skeletal muscle cell differentiation. Predicted to act upstream of or within several processes, including positive regulation of transcription by RNA polymerase II; skeletal system morphogenesis; and somitogenesis. Predicted to be located in nucleoplasm. Orthologous to human MYF5 (myogenic factor 5); INTERACTS WITH bisphenol A; bupivacaine; chromium atom.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC299766
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8744,689,407 - 44,692,638 (-)NCBIGRCr8
mRatBN7.2742,802,946 - 42,806,177 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl742,802,946 - 42,806,177 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx744,715,406 - 44,718,610 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0746,918,487 - 46,921,691 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0746,696,321 - 46,699,525 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0749,729,533 - 49,732,974 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl749,729,533 - 49,732,764 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0749,739,441 - 49,742,672 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4746,189,256 - 46,192,487 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1746,210,584 - 46,212,529 (-)NCBI
Celera739,675,643 - 39,678,874 (-)NCBICelera
Cytogenetic Map7q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. GOA pipeline RGD automated data pipeline
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8269513   PMID:8565825   PMID:8587605   PMID:10929709   PMID:15634692   PMID:16554364   PMID:17855775   PMID:19531352   PMID:21258934   PMID:22147266   PMID:22638570   PMID:24361185  


Genomics

Comparative Map Data
Myf5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8744,689,407 - 44,692,638 (-)NCBIGRCr8
mRatBN7.2742,802,946 - 42,806,177 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl742,802,946 - 42,806,177 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx744,715,406 - 44,718,610 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0746,918,487 - 46,921,691 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0746,696,321 - 46,699,525 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0749,729,533 - 49,732,974 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl749,729,533 - 49,732,764 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0749,739,441 - 49,742,672 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4746,189,256 - 46,192,487 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1746,210,584 - 46,212,529 (-)NCBI
Celera739,675,643 - 39,678,874 (-)NCBICelera
Cytogenetic Map7q21NCBI
MYF5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381280,716,912 - 80,719,671 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1280,716,912 - 80,719,671 (+)EnsemblGRCh38hg38GRCh38
GRCh371281,110,691 - 81,113,450 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361279,634,839 - 79,637,578 (+)NCBINCBI36Build 36hg18NCBI36
Build 341279,613,268 - 79,615,915NCBI
Celera1280,776,922 - 80,779,661 (+)NCBICelera
Cytogenetic Map12q21.31NCBI
HuRef1278,167,593 - 78,170,332 (+)NCBIHuRef
CHM1_11281,077,115 - 81,079,854 (+)NCBICHM1_1
T2T-CHM13v2.01280,695,622 - 80,698,381 (+)NCBIT2T-CHM13v2.0
Myf5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3910107,318,769 - 107,322,787 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl10107,318,769 - 107,321,995 (-)EnsemblGRCm39 Ensembl
GRCm3810107,482,908 - 107,486,927 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl10107,482,908 - 107,486,134 (-)EnsemblGRCm38mm10GRCm38
MGSCv3710106,919,964 - 106,923,190 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3610106,887,018 - 106,890,244 (-)NCBIMGSCv36mm8
Celera10109,425,392 - 109,428,623 (-)NCBICelera
Cytogenetic Map10D1NCBI
cM Map1055.95NCBI
Myf5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540519,345,943 - 19,348,453 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540519,345,943 - 19,348,453 (+)NCBIChiLan1.0ChiLan1.0
MYF5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21088,764,988 - 88,767,747 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11288,761,383 - 88,764,142 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01278,236,945 - 78,239,701 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11281,347,640 - 81,350,389 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1281,347,324 - 81,350,389 (+)Ensemblpanpan1.1panPan2
MYF5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11523,049,235 - 23,051,604 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1523,048,585 - 23,051,970 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1523,473,030 - 23,475,426 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01523,410,137 - 23,412,529 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.11522,987,463 - 22,989,855 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01523,046,938 - 23,049,333 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01523,287,307 - 23,290,205 (+)NCBIUU_Cfam_GSD_1.0
Myf5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494537,300,158 - 37,303,273 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366981,609,227 - 1,611,283 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366981,609,227 - 1,611,283 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MYF5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl5100,752,890 - 100,755,494 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.15100,753,440 - 100,755,558 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.25105,701,164 - 105,703,283 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MYF5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11176,189,122 - 76,193,830 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1176,191,579 - 76,193,549 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037169,243,360 - 169,246,115 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Myf5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462483733,864 - 35,837 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462483733,735 - 36,052 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Myf5
16 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:140
Count of miRNA genes:98
Interacting mature miRNAs:133
Transcripts:ENSRNOT00000006453
Prediction methods:Miranda, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
10755438Coatc9Coat color QTL 90coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7352928048529280Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7532901950329019Rat
10755440Coatc10Coat color QTL 100coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7749649952496499Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7757398552573985Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)7946224658265113Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)7946224698011544Rat
1578652Bmd15Bone mineral density QTL 155.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)7986646760460686Rat
738033Anxrr6Anxiety related response QTL 64.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)71557388960573889Rat
2317059Aia15Adjuvant induced arthritis QTL 152.46joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)71700459862004598Rat
10755451Coatc11Coat color QTL 110coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)71794435762944357Rat
1354637Scl30Serum cholesterol level QTL 303.7blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)71965431749753746Rat
1354644Spl4Serum phospholipid level QTL 44.9blood phospholipid amount (VT:0006084)blood phospholipid level (CMO:0001169)71965431749753746Rat
1354639Spl5Serum phospholipid level QTL 53.9blood LDL phospholipid amount (VT:0010505)blood low density lipoprotein phospholipid level (CMO:0001568)71965431752888450Rat
1300132Bp182Blood pressure QTL 1823.49arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)71965431784928080Rat
7411569Bw137Body weight QTL 1370.001body mass (VT:0001259)body weight gain (CMO:0000420)72192119566921195Rat
1641885Alcrsp9Alcohol response QTL 9alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)72409960669099606Rat
1549840Bss5Bone structure and strength QTL 59.8femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)72475184169751841Rat
70190Mcs6Mammary carcinoma susceptibility QTL 62.29mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)72673740163902784Rat
1300138Hrtrt9Heart rate QTL 94.72heart pumping trait (VT:2000009)heart rate (CMO:0000002)72940968353612950Rat
10402855Bp379Blood pressure QTL 3790.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)72940968374409683Rat
1300127Srn1Serum renin concentration QTL 13.87blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)72940968384928080Rat
10755453Coatc12Coat color QTL 120coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)73111283276112832Rat
7411605Foco14Food consumption QTL 1424.10.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)73429328279293282Rat
631534Lnnr1Liver neoplastic nodule remodeling QTL 13.850.001liver integrity trait (VT:0010547)liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)73429328279293282Rat
631513Scl7Serum cholesterol level QTL 74.1blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)73796056982960569Rat
2303629Vencon3Ventilatory control QTL 37.25respiration trait (VT:0001943)respiration rate (CMO:0000289)74110969256793354Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)741333674119109060Rat
634326Hc3Hypercalciuria QTL 32.1urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)74278731487787314Rat

Markers in Region
Myf5  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2742,804,011 - 42,804,727 (+)MAPPERmRatBN7.2
Rnor_6.0749,730,599 - 49,731,314NCBIRnor6.0
Rnor_5.0749,740,507 - 49,741,222UniSTSRnor5.0
RGSC_v3.4746,190,322 - 46,191,037UniSTSRGSC3.4
Celera739,676,709 - 39,677,424UniSTS
Cytogenetic Map7q21UniSTS
Myf5  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2742,804,668 - 42,805,581 (+)MAPPERmRatBN7.2
Rnor_6.0749,731,256 - 49,732,168NCBIRnor6.0
Rnor_5.0749,741,164 - 49,742,076UniSTSRnor5.0
RGSC_v3.4746,190,979 - 46,191,891UniSTSRGSC3.4
Celera739,677,366 - 39,678,278UniSTS
Cytogenetic Map7q21UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2
Low 8 10 6 4 8
Below cutoff 2 6 5 1 5 1 8 4 9 3

Sequence


RefSeq Acc Id: ENSRNOT00000006453   ⟹   ENSRNOP00000006453
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl742,802,946 - 42,806,177 (-)Ensembl
Rnor_6.0 Ensembl749,729,533 - 49,732,764 (-)Ensembl
RefSeq Acc Id: NM_001106783   ⟹   NP_001100253
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8744,689,407 - 44,692,638 (-)NCBI
mRatBN7.2742,802,946 - 42,806,177 (-)NCBI
Rnor_6.0749,729,533 - 49,732,764 (-)NCBI
Rnor_5.0749,739,441 - 49,742,672 (-)NCBI
RGSC_v3.4746,189,256 - 46,192,487 (-)RGD
Celera739,675,643 - 39,678,874 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001100253 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM16769 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000006453
  ENSRNOP00000006453.5
RefSeq Acc Id: NP_001100253   ⟸   NM_001106783
- UniProtKB: D3ZVU3 (UniProtKB/TrEMBL),   A6IGC9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000006453   ⟸   ENSRNOT00000006453
Protein Domains
bHLH

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZVU3-F1-model_v2 AlphaFold D3ZVU3 1-255 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308322 AgrOrtholog
BioCyc Gene G2FUF-34178 BioCyc
Ensembl Genes ENSRNOG00000004768 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000006453 ENTREZGENE
  ENSRNOT00000006453.6 UniProtKB/TrEMBL
Gene3D-CATH 4.10.280.10 UniProtKB/TrEMBL
InterPro Basic UniProtKB/TrEMBL
  HLH_DNA-bd UniProtKB/TrEMBL
  HLH_DNA-bd_sf UniProtKB/TrEMBL
  Myf5 UniProtKB/TrEMBL
  Myogenic_factor UniProtKB/TrEMBL
KEGG Report rno:299766 UniProtKB/TrEMBL
NCBI Gene 299766 ENTREZGENE
PANTHER MYOGENIC FACTOR 5 UniProtKB/TrEMBL
  PTHR11534 UniProtKB/TrEMBL
Pfam Basic UniProtKB/TrEMBL
  HLH UniProtKB/TrEMBL
  Myf5 UniProtKB/TrEMBL
PhenoGen Myf5 PhenoGen
PROSITE HLH UniProtKB/TrEMBL
RatGTEx ENSRNOG00000004768 RatGTEx
SMART BASIC UniProtKB/TrEMBL
  HLH UniProtKB/TrEMBL
Superfamily-SCOP HLH_basic UniProtKB/TrEMBL
UniProt A6IGC9 ENTREZGENE, UniProtKB/TrEMBL
  D3ZVU3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Myf5  myogenic factor 5   Myf5_predicted  myogenic factor 5 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Myf5_predicted  myogenic factor 5 (predicted)      Symbol and Name status set to approved 70820 APPROVED