Myom1 (myomesin 1) - Rat Genome Database

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Gene: Myom1 (myomesin 1) Rattus norvegicus
Analyze
Symbol: Myom1
Name: myomesin 1
RGD ID: 631436
Description: Predicted to have actin filament binding activity; kinase binding activity; and protein homodimerization activity. Involved in extraocular skeletal muscle development. Localizes to M band. Orthologous to human MYOM1 (myomesin 1); INTERACTS WITH 2,3,7,8-Tetrachlorodibenzofuran; ammonium chloride; atrazine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: myomesin 1 (skelemin) 185kDa; myomesin-1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.29110,916,156 - 111,039,344 (+)NCBI
Rnor_6.0 Ensembl9119,353,840 - 119,468,715 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.09119,353,840 - 119,469,196 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.09118,808,061 - 118,922,531 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.49110,218,668 - 110,341,029 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.19110,492,862 - 110,499,352 (+)NCBI
Celera9108,050,734 - 108,169,433 (+)NCBICelera
Cytogenetic Map9q38NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
M band  (IBA,IDA,ISO)
sarcomere  (ISO)

Molecular Function

References

Additional References at PubMed
PMID:8618961   PMID:12651156   PMID:12972258   PMID:16702235   PMID:18059477   PMID:18177667   PMID:18310078   PMID:18521710   PMID:19182904   PMID:20215401   PMID:20368620   PMID:22347812  
PMID:22562206   PMID:25152160  


Genomics

Comparative Map Data
Myom1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.29110,916,156 - 111,039,344 (+)NCBI
Rnor_6.0 Ensembl9119,353,840 - 119,468,715 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.09119,353,840 - 119,469,196 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.09118,808,061 - 118,922,531 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.49110,218,668 - 110,341,029 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.19110,492,862 - 110,499,352 (+)NCBI
Celera9108,050,734 - 108,169,433 (+)NCBICelera
Cytogenetic Map9q38NCBI
MYOM1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl183,066,807 - 3,219,968 (-)EnsemblGRCh38hg38GRCh38
GRCh38183,066,807 - 3,220,108 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37183,066,805 - 3,219,966 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36183,056,805 - 3,210,106 (-)NCBINCBI36hg18NCBI36
Build 34183,056,805 - 3,210,106NCBI
Celera182,942,458 - 3,099,594 (-)NCBI
Cytogenetic Map18p11.31NCBI
HuRef183,028,045 - 3,184,538 (-)NCBIHuRef
CHM1_1183,066,174 - 3,219,476 (-)NCBICHM1_1
Myom1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391771,326,455 - 71,433,851 (+)NCBIGRCm39mm39
GRCm39 Ensembl1771,309,628 - 71,433,851 (+)Ensembl
GRCm381771,003,332 - 71,126,856 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1771,002,633 - 71,126,856 (+)EnsemblGRCm38mm10GRCm38
MGSCv371771,368,897 - 71,476,196 (+)NCBIGRCm37mm9NCBIm37
MGSCv361770,924,378 - 71,031,712 (+)NCBImm8
Celera1775,288,990 - 75,395,041 (+)NCBICelera
Cytogenetic Map17E1.3NCBI
Myom1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554027,297,502 - 7,417,583 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554027,293,415 - 7,418,226 (+)NCBIChiLan1.0ChiLan1.0
MYOM1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11813,368,052 - 13,523,834 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1813,368,052 - 13,523,834 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01811,057,733 - 11,215,998 (+)NCBIMhudiblu_PPA_v0panPan3
MYOM1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1769,703,057 - 69,837,987 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl769,703,540 - 69,857,740 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha769,158,406 - 69,293,346 (-)NCBI
ROS_Cfam_1.0769,764,740 - 69,899,505 (-)NCBI
UMICH_Zoey_3.1769,447,603 - 69,582,520 (-)NCBI
UNSW_CanFamBas_1.0769,467,081 - 69,602,041 (-)NCBI
UU_Cfam_GSD_1.0769,765,301 - 69,900,453 (-)NCBI
Myom1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494466,059,985 - 66,191,003 (-)NCBI
SpeTri2.0NW_0049366721,351,053 - 1,481,954 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MYOM1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6103,451,343 - 103,597,324 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16103,451,206 - 103,593,093 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2696,478,318 - 96,620,102 (+)NCBISscrofa10.2Sscrofa10.2susScr3
MYOM1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11862,321,086 - 62,474,955 (-)NCBI
ChlSab1.1 Ensembl1862,320,793 - 62,465,485 (-)Ensembl
Vero_WHO_p1.0NW_02366605037,178,674 - 37,338,282 (-)NCBI
Myom1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477013,239,572 - 13,356,041 (-)NCBI

Position Markers
D9Got126  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.29110,940,957 - 110,941,239 (+)MAPPER
Rnor_6.09119,374,278 - 119,374,559NCBIRnor6.0
Rnor_5.09118,828,425 - 118,828,706UniSTSRnor5.0
RGSC_v3.49110,239,452 - 110,239,731RGDRGSC3.4
RGSC_v3.49110,239,451 - 110,239,732UniSTSRGSC3.4
RGSC_v3.19110,448,932 - 110,449,211RGD
Celera9108,071,174 - 108,071,455UniSTS
RH 3.4 Map9853.8UniSTS
RH 3.4 Map9853.8RGD
RH 2.0 Map91031.4RGD
Cytogenetic Map9q38UniSTS
RH128912  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.29111,039,095 - 111,039,275 (+)MAPPER
Rnor_6.09119,468,948 - 119,469,127NCBIRnor6.0
Rnor_5.09118,922,283 - 118,922,462UniSTSRnor5.0
RGSC_v3.49110,340,781 - 110,340,960UniSTSRGSC3.4
Celera9108,169,185 - 108,169,364UniSTS
RH 3.4 Map16440.11UniSTS
Cytogenetic Map9q38UniSTS
AI171311  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.29111,000,576 - 111,000,755 (+)MAPPER
Rnor_6.09119,430,702 - 119,430,881NCBIRnor6.0
Rnor_5.09118,884,328 - 118,884,507UniSTSRnor5.0
RGSC_v3.49110,299,907 - 110,300,087UniSTSRGSC3.4
Celera9108,130,553 - 108,130,732UniSTS
RH 3.4 Map9869.3UniSTS
Cytogenetic Map9q38UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)929075079122095297Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)981411073119983851Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)990024661119983851Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:95
Count of miRNA genes:78
Interacting mature miRNAs:88
Transcripts:ENSRNOT00000029583
Prediction methods:Microtar, 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.


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

alimentary part of gastrointestinal system 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 43 8 11 5 7 8
Low 3 47 31 17 31 49 35 34 4
Below cutoff 10 10 2 10 25 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000085362   ⟹   ENSRNOP00000073506
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl9119,353,840 - 119,468,715 (+)Ensembl
RefSeq Acc Id: NM_001191584   ⟹   NP_001178513
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29110,920,526 - 111,039,344 (+)NCBI
Rnor_6.09119,353,840 - 119,469,196 (+)NCBI
Rnor_5.09118,808,061 - 118,922,531 (+)NCBI
Celera9108,050,734 - 108,169,433 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039083797   ⟹   XP_038939725
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29110,916,156 - 111,039,344 (+)NCBI
RefSeq Acc Id: XM_039083798   ⟹   XP_038939726
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29110,916,644 - 111,039,344 (+)NCBI
RefSeq Acc Id: XM_039083799   ⟹   XP_038939727
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29110,916,156 - 111,039,344 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001178513   ⟸   NM_001191584
- Sequence:
RefSeq Acc Id: ENSRNOP00000073506   ⟸   ENSRNOT00000085362
RefSeq Acc Id: XP_038939727   ⟸   XM_039083799
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038939725   ⟸   XM_039083797
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038939726   ⟸   XM_039083798
- Peptide Label: isoform X1
Protein Domains
Fibronectin type-III   Ig-like

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:631436 AgrOrtholog
Ensembl Genes ENSRNOG00000057701 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000073506 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000085362 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro FN3_sf UniProtKB/TrEMBL
  FN_III UniProtKB/TrEMBL
  Ig-like_dom UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig_I-set UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/TrEMBL
NCBI Gene 316740 ENTREZGENE
Pfam fn3 UniProtKB/TrEMBL
  I-set UniProtKB/TrEMBL
PhenoGen Myom1 PhenoGen
PROSITE FN3 UniProtKB/TrEMBL
  IG_LIKE UniProtKB/TrEMBL
SMART FN3 UniProtKB/TrEMBL
  IGc2 UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP FN_III-like UniProtKB/TrEMBL
  SSF48726 UniProtKB/TrEMBL
UniProt A0A0G2K5P5_RAT UniProtKB/TrEMBL
  Q80UL1_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-25 Myom1  myomesin 1  Myom1  myomesin 1 (skelemin) 185kDa  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Myom1  myomesin 1 (skelemin) 185kDa    myomesin 1  Name updated 1299863 APPROVED
2004-02-11 Myom1  myomesin 1      Symbol and Name status set to approved 625702 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expression is postnatally downregulated 633368