Myt1 (myelin transcription factor 1) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Myt1 (myelin transcription factor 1) Rattus norvegicus
Analyze
Symbol: Myt1
Name: myelin transcription factor 1
RGD ID: 1304899
Description: Predicted to have 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 several processes, including diaphragm development; regulation of gene expression; and regulation of insulin secretion involved in cellular response to glucose stimulus. Predicted to localize to cytosol and nucleoplasm. Orthologous to human MYT1 (myelin transcription factor 1); INTERACTS WITH 6-propyl-2-thiouracil; acrylamide; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC362291
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
mRatBN7.23168,890,466 - 168,950,341 (+)NCBI
Rnor_6.0 Ensembl3177,310,753 - 177,341,547 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.03177,281,365 - 177,341,550 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.03180,989,537 - 181,049,955 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43170,954,769 - 170,985,583 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13170,827,281 - 170,891,617 (+)NCBI
Celera3163,640,239 - 163,671,029 (-)NCBICelera
Cytogenetic Map3q43NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

Additional References at PubMed
PMID:9373037   PMID:17442045   PMID:17928203   PMID:26071990   PMID:28303373  


Genomics

Comparative Map Data
Myt1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23168,890,466 - 168,950,341 (+)NCBI
Rnor_6.0 Ensembl3177,310,753 - 177,341,547 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.03177,281,365 - 177,341,550 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.03180,989,537 - 181,049,955 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43170,954,769 - 170,985,583 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13170,827,281 - 170,891,617 (+)NCBI
Celera3163,640,239 - 163,671,029 (-)NCBICelera
Cytogenetic Map3q43NCBI
MYT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2064,102,394 - 64,242,253 (+)EnsemblGRCh38hg38GRCh38
GRCh382064,164,452 - 64,242,253 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372062,795,805 - 62,873,606 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362062,266,271 - 62,344,050 (+)NCBINCBI36hg18NCBI36
Build 342062,266,270 - 62,344,048NCBI
Celera2059,480,507 - 59,558,438 (+)NCBI
Cytogenetic Map20q13.33NCBI
HuRef2059,521,605 - 59,598,530 (+)NCBIHuRef
CHM1_12062,696,840 - 62,774,541 (+)NCBICHM1_1
Myt1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392181,405,099 - 181,469,579 (+)NCBIGRCm39mm39
GRCm39 Ensembl2181,405,125 - 181,469,590 (+)Ensembl
GRCm382181,763,332 - 181,827,775 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2181,763,332 - 181,827,797 (+)EnsemblGRCm38mm10GRCm38
MGSCv372181,498,037 - 181,562,480 (+)NCBIGRCm37mm9NCBIm37
MGSCv362181,696,448 - 181,757,174 (+)NCBImm8
Celera2185,838,883 - 185,903,600 (+)NCBICelera
Cytogenetic Map2H4NCBI
cM Map2103.77NCBI
Myt1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495552847,800 - 112,114 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495552848,198 - 108,293 (-)NCBIChiLan1.0ChiLan1.0
MYT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12062,081,231 - 62,153,741 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2062,108,924 - 62,151,936 (+)Ensemblpanpan1.1panPan2
MYT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12447,574,201 - 47,639,962 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2447,574,255 - 47,638,315 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2446,711,804 - 46,773,586 (+)NCBI
ROS_Cfam_1.02448,717,427 - 48,779,220 (+)NCBI
UMICH_Zoey_3.12447,562,006 - 47,623,774 (+)NCBI
UNSW_CanFamBas_1.02447,686,311 - 47,748,092 (+)NCBI
UU_Cfam_GSD_1.02448,425,706 - 48,487,543 (+)NCBI
Myt1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640195,852,513 - 195,914,291 (+)NCBI
SpeTri2.0NW_00493651411,305,929 - 11,367,935 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MYT1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1762,979,350 - 63,014,697 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11762,955,052 - 63,020,652 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
MYT1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1259,574 - 96,113 (-)NCBI
ChlSab1.1 Ensembl261,371 - 96,583 (-)Ensembl
Myt1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474129,779,177 - 29,837,606 (+)NCBI

Position Markers
D3Mco37  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03177,313,106 - 177,313,308NCBIRnor6.0
Rnor_5.03181,021,494 - 181,021,696UniSTSRnor5.0
RGSC_v3.43170,957,122 - 170,957,324UniSTSRGSC3.4
Celera3163,668,458 - 163,668,676UniSTS
Cytogenetic Map3q43UniSTS
RH10656  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03177,341,292 - 177,341,468NCBIRnor6.0
Rnor_5.03181,049,697 - 181,049,873UniSTSRnor5.0
RGSC_v3.43170,985,328 - 170,985,504UniSTSRGSC3.4
Celera3163,640,318 - 163,640,494UniSTS
Cytogenetic Map3q43UniSTS
UniSTS:258472  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03177,310,220 - 177,310,325NCBIRnor6.0
Rnor_5.03181,018,608 - 181,018,713UniSTSRnor5.0
RGSC_v3.43170,954,236 - 170,954,341UniSTSRGSC3.4
Celera3163,671,457 - 163,671,562UniSTS
Cytogenetic Map3q43UniSTS
PMC304100P8  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03177,339,953 - 177,340,152NCBIRnor6.0
Rnor_5.03181,048,358 - 181,048,557UniSTSRnor5.0
RGSC_v3.43170,983,989 - 170,984,188UniSTSRGSC3.4
Celera3163,641,634 - 163,641,833UniSTS
Cytogenetic Map3q43UniSTS
UniSTS:546878  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03177,314,974 - 177,316,087NCBIRnor6.0
Rnor_5.03181,023,362 - 181,024,475UniSTSRnor5.0
Celera3163,665,679 - 163,666,792UniSTS
Cytogenetic Map3q43UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)345406058177699992Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3129787213177699992Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3138374177177699992Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3138374177177699992Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3139578365177699992Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3146232777177699992Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3148034701177699992Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3150368003177699992Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3153412455177699992Rat
2317883Alcrsp26Alcohol response QTL 261.80.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)3153918022177699992Rat
1300161Rf10Renal function QTL 103.57renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)3170428815177699992Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:592
Count of miRNA genes:269
Interacting mature miRNAs:358
Transcripts:ENSRNOT00000031448
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 63
Low 3 10 2 2 11 11
Below cutoff 9 11 7 11 7 1 1 6 23 9 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000031448   ⟹   ENSRNOP00000032420
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl3177,310,753 - 177,341,547 (+)Ensembl
RefSeq Acc Id: NM_001108615   ⟹   NP_001102085
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,919,551 - 168,950,341 (+)NCBI
Rnor_6.03177,310,753 - 177,341,547 (+)NCBI
Rnor_5.03180,989,537 - 181,049,955 (+)NCBI
RGSC_v3.43170,954,769 - 170,985,583 (+)RGD
Celera3163,640,239 - 163,671,029 (-)RGD
Sequence:
RefSeq Acc Id: XM_006235782   ⟹   XP_006235844
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03177,281,700 - 177,341,550 (+)NCBI
Rnor_5.03180,989,537 - 181,049,955 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006235783   ⟹   XP_006235845
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03177,281,365 - 177,341,550 (+)NCBI
Rnor_5.03180,989,537 - 181,049,955 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006235784   ⟹   XP_006235846
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03177,281,700 - 177,341,550 (+)NCBI
Rnor_5.03180,989,537 - 181,049,955 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006235786   ⟹   XP_006235848
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03177,281,700 - 177,333,800 (+)NCBI
Rnor_5.03180,989,537 - 181,049,955 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039105570   ⟹   XP_038961498
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,890,466 - 168,942,791 (+)NCBI
RefSeq Acc Id: XM_039105571   ⟹   XP_038961499
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,890,467 - 168,937,261 (+)NCBI
RefSeq Acc Id: XM_039105572   ⟹   XP_038961500
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23168,890,467 - 168,937,260 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001102085 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961498 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961499 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961500 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL88668 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001102085   ⟸   NM_001108615
- UniProtKB: D3ZYT5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006235845   ⟸   XM_006235783
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006235844   ⟸   XM_006235782
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006235846   ⟸   XM_006235784
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006235848   ⟸   XM_006235786
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000032420   ⟸   ENSRNOT00000031448
RefSeq Acc Id: XP_038961498   ⟸   XM_039105570
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038961499   ⟸   XM_039105571
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038961500   ⟸   XM_039105572
- Peptide Label: isoform X3
Protein Domains
MYT1

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)
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
WKY/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
WKY/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
WKY/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
WKY/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
WN/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
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 181024550 181024551 A T snv SBH/Ygl (MCW), BUF/MNa (KyushuU), F344/NRrrc (SOLiD) (KNAW), LE/Stm (KyushuU), F344/NSlc (KyushuU), F344/Jcl (KyushuU), DOB/Oda (KyushuU), FHH/EurMcwi (MCW), LN/MavRrrc (KNAW), SHRSP/Gcrc (KNAW), F344/NCrl (KNAW), RCS/Kyo (KyushuU), HWY/Slc (KyushuU), LEC/Tj (KyushuU), BDIX/NemOda (KyushuU), ACI/N (KNAW), SHR/NHsd (KNAW), SHR/OlaIpcv (KNAW), F344/NRrrc (Illumina) (KNAW), WKY/Gcrc (KNAW), LEW/Crl (KNAW), M520/N (KNAW), F344/DuCrlCrlj (KyushuU), MHS/Gib (KNAW), SBH/Ygl (KNAW), FHH/EurMcwi (KNAW), F344/Stm (KyushuU), WAG/Rij (KNAW), LE/Stm (Illumina) (KNAW), WN/N (KNAW), BDIX.Cg-Tal/NemOda (KyushuU), ZFDM (KyushuU), LH/MavRrrc (KNAW), ACI/EurMcwi (KNAW), SHR/OlaIpcvPrin (KNAW), LE/Stm (SOLiD) (KNAW), LEW/NCrl (KNAW), HTX/Kyo (KyushuU), GH/OmrMcwi (MCW), SR/JrHsd (MCW), SR/JrHsd (KNAW), DA/BklArbNsi (KNAW), ACI/EurMcwi (MCW), COP/CrCrl (MCW & UW), MR/N (KNAW), SHR/NCrlPrin (KNAW), F344/NHsd (KNAW), LE/OrlBarth (UDEL), BUF/N (KNAW)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 177316162 177316163 A T snv CDS, MR/N (MCW), ACI/EurMcwi (RGD), WAG/Rij (RGD), FHH/EurMcwi (MCW), WN/N (MCW), MHS/Gib (RGD), Buf/N (MCW), LN/MavRrrc (RGD), SHR/NHsd (RGD), ACI/EurMcwi (MCW), SR/JrHsd (MCW), M520/N (MCW), LE/Stm (RGD), LEW/NCrlBR (RGD), SHRSP/Gcrc (RGD), SR/JrHsd (RGD), COP/CrCrl (MCW & UW), GH/OmrMcwi (MCW), SBH/Ygl (RGD), WKY/Gcrc (RGD), SBH/Ygl (MCW), ACI/N (MCW), F344/NRrrc (MCW), F344/NCrl (RGD), FHH/EurMcwi (RGD), LH/MavRrrc (RGD), LEW/Crl (RGD)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1304899 AgrOrtholog
Ensembl Genes ENSRNOG00000017346 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000032420 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000031448 ENTREZGENE, UniProtKB/TrEMBL
InterPro Myelin_TF UniProtKB/TrEMBL
  Znf_C2HC UniProtKB/TrEMBL
  Znf_C2HC_sf UniProtKB/TrEMBL
KEGG Report rno:362291 UniProtKB/TrEMBL
NCBI Gene 362291 ENTREZGENE
Pfam MYT1 UniProtKB/TrEMBL
  zf-C2HC UniProtKB/TrEMBL
PhenoGen Myt1 PhenoGen
PROSITE ZF_CCHHC UniProtKB/TrEMBL
Superfamily-SCOP SSF103637 UniProtKB/TrEMBL
UniProt D3ZYT5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Myt1  myelin transcription factor 1   Myt1_predicted  myelin transcription factor 1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Myt1_predicted  myelin transcription factor 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED