Mtmr3 (myotubularin related protein 3) - Rat Genome Database

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Gene: Mtmr3 (myotubularin related protein 3) Rattus norvegicus
Analyze
Symbol: Mtmr3
Name: myotubularin related protein 3
RGD ID: 1310972
Description: Predicted to enable phosphatase activity and protein phosphatase binding activity. Predicted to be involved in several processes, including cellular response to glucose starvation; phosphatidylinositol metabolic process; and regulation of phosphatidylinositol dephosphorylation. Predicted to be extrinsic component of membrane. Predicted to be active in cytoplasm and membrane. Orthologous to human MTMR3 (myotubularin related protein 3); INTERACTS WITH bisphenol A; thioacetamide; 1,2-dimethylhydrazine (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC305482; myotubularin-related protein 3; phosphatidylinositol-3,5-bisphosphate 3-phosphatase; phosphatidylinositol-3-phosphate phosphatase
RGD Orthologs
Human
Mouse
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
mRatBN7.21479,340,523 - 79,460,947 (-)NCBI
Rnor_6.0 Ensembl1484,701,559 - 84,820,415 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01484,701,559 - 84,820,487 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01485,381,833 - 85,500,463 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41485,098,317 - 85,234,597 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11485,117,461 - 85,253,742 (-)NCBI
Celera1478,249,424 - 78,367,258 (-)NCBICelera
Cytogenetic Map14q21NCBI
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

Cellular Component
cytoplasm  (IEA,ISO,ISS)
extrinsic component of membrane  (IEA,ISO,ISS)
membrane  (ISO)

References

Additional References at PubMed
PMID:10733931   PMID:10900271   PMID:11676921   PMID:12477932   PMID:15632090   PMID:16787938   PMID:25578879  


Genomics

Comparative Map Data
Mtmr3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21479,340,523 - 79,460,947 (-)NCBI
Rnor_6.0 Ensembl1484,701,559 - 84,820,415 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01484,701,559 - 84,820,487 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01485,381,833 - 85,500,463 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41485,098,317 - 85,234,597 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11485,117,461 - 85,253,742 (-)NCBI
Celera1478,249,424 - 78,367,258 (-)NCBICelera
Cytogenetic Map14q21NCBI
MTMR3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2229,883,169 - 30,030,868 (+)EnsemblGRCh38hg38GRCh38
GRCh382229,883,174 - 30,030,868 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372230,279,163 - 30,426,857 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362228,609,158 - 28,756,857 (+)NCBINCBI36hg18NCBI36
Build 342228,603,752 - 28,748,423NCBI
Celera2214,078,881 - 14,226,583 (+)NCBI
Cytogenetic Map22q12.2NCBI
HuRef2213,241,277 - 13,388,890 (+)NCBIHuRef
CHM1_12230,238,335 - 30,386,025 (+)NCBICHM1_1
Mtmr3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39114,430,867 - 4,544,863 (-)NCBIGRCm39mm39
GRCm39 Ensembl114,430,868 - 4,544,863 (-)Ensembl
GRCm38114,480,867 - 4,594,863 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl114,480,868 - 4,594,863 (-)EnsemblGRCm38mm10GRCm38
MGSCv37114,380,871 - 4,494,818 (-)NCBIGRCm37mm9NCBIm37
MGSCv36114,382,568 - 4,494,795 (-)NCBImm8
Celera114,980,322 - 5,095,598 (-)NCBICelera
Cytogenetic Map11A1NCBI
MTMR3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12228,728,450 - 28,878,055 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2228,818,273 - 28,872,982 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02210,925,275 - 11,072,554 (+)NCBIMhudiblu_PPA_v0panPan3
MTMR3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12623,047,500 - 23,187,694 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2623,047,345 - 23,186,262 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2622,919,097 - 23,059,144 (+)NCBI
ROS_Cfam_1.02623,420,711 - 23,562,619 (+)NCBI
UMICH_Zoey_3.12623,130,791 - 23,272,592 (+)NCBI
UNSW_CanFamBas_1.02623,393,693 - 23,535,519 (+)NCBI
UU_Cfam_GSD_1.02623,453,960 - 23,595,145 (+)NCBI
LOC101969050
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118111,984,250 - 112,078,675 (-)NCBI
SpeTri2.0NW_0049366573,792,043 - 3,891,113 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MTMR3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1446,875,032 - 47,023,505 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11446,874,977 - 47,022,581 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21449,912,225 - 50,061,635 (+)NCBISscrofa10.2Sscrofa10.2susScr3
MTMR3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11912,772,193 - 12,917,177 (+)NCBI
ChlSab1.1 Ensembl1912,843,491 - 12,912,121 (+)Ensembl
Vero_WHO_p1.0NW_023666045113,228,569 - 113,373,101 (-)NCBI
Mtmr3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247476,193,859 - 6,335,897 (+)NCBI

Position Markers
RH136875  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21479,340,523 - 79,340,684 (+)MAPPER
Rnor_6.01484,701,559 - 84,701,719NCBIRnor6.0
Rnor_5.01485,381,833 - 85,381,993UniSTSRnor5.0
RGSC_v3.41485,098,317 - 85,098,477UniSTSRGSC3.4
Celera1478,249,424 - 78,249,584UniSTS
RH 3.4 Map14549.6UniSTS
Cytogenetic Map14q21UniSTS
BM386970  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21479,402,379 - 79,402,577 (+)MAPPER
Rnor_6.01484,763,411 - 84,763,608NCBIRnor6.0
Rnor_5.01485,443,685 - 85,443,882UniSTSRnor5.0
RGSC_v3.41485,162,398 - 85,162,595UniSTSRGSC3.4
Celera1478,311,017 - 78,311,214UniSTS
RH 3.4 Map14549.79UniSTS
Cytogenetic Map14q21UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1412680424106641756Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143259392686191589Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)144031561085315610Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)144031561085315610Rat
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)144031561085315610Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)144031561085315610Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1442442731108833671Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1443910761105074364Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1451818462105074364Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1460980905105980905Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1460980905105980905Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)146187332388870994Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1461993178106993178Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1463548095108548095Rat
70153Bp59Blood pressure QTL 593.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)147339146788870994Rat
1582236Gluco22Glucose level QTL 223.30.0164blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1478172765102549388Rat
1582255Gluco29Glucose level QTL 293.10.0025blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)1478172765102549388Rat
1582197Gluco27Glucose level QTL 273.40.0006blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1478172765102549388Rat
1582209Gluco20Glucose level QTL 203.80.0005blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1478172765102549388Rat
1582250Gluco26Glucose level QTL 263.30.0009blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1478172765106641756Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1478446303110402569Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1480049285115493446Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1480049285115493446Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:343
Count of miRNA genes:194
Interacting mature miRNAs:258
Transcripts:ENSRNOT00000057501
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.


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 3 43 56 40 19 40 8 11 74 35 41 11 8
Low 1 1 1
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001012038 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006251302 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006251304 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006251305 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770299 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770300 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770301 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770302 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770303 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770304 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770305 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770306 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092040 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092041 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092042 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092043 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092045 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092046 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092047 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092048 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092049 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC087045 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473963 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000254 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000057501   ⟹   ENSRNOP00000054309
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1484,701,559 - 84,820,415 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000078838   ⟹   ENSRNOP00000074555
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1484,703,263 - 84,751,886 (-)Ensembl
RefSeq Acc Id: NM_001012038   ⟹   NP_001012038
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21479,340,524 - 79,460,947 (-)NCBI
Rnor_6.01484,701,559 - 84,820,415 (-)NCBI
Rnor_5.01485,381,833 - 85,500,463 (-)NCBI
RGSC_v3.41485,098,317 - 85,234,597 (-)RGD
Celera1478,249,424 - 78,367,258 (-)RGD
Sequence:
RefSeq Acc Id: XM_006251302   ⟹   XP_006251364
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21479,340,523 - 79,460,923 (-)NCBI
Rnor_6.01484,701,559 - 84,820,487 (-)NCBI
Rnor_5.01485,381,833 - 85,500,463 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006251304   ⟹   XP_006251366
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21479,340,523 - 79,460,925 (-)NCBI
Rnor_6.01484,701,559 - 84,820,487 (-)NCBI
Rnor_5.01485,381,833 - 85,500,463 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006251305   ⟹   XP_006251367
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21479,340,523 - 79,460,918 (-)NCBI
Rnor_6.01484,701,559 - 84,820,487 (-)NCBI
Rnor_5.01485,381,833 - 85,500,463 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008770301   ⟹   XP_008768523
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21479,340,523 - 79,460,918 (-)NCBI
Rnor_6.01484,701,559 - 84,820,487 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039092040   ⟹   XP_038947968
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21479,340,523 - 79,460,920 (-)NCBI
RefSeq Acc Id: XM_039092041   ⟹   XP_038947969
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21479,340,523 - 79,460,923 (-)NCBI
RefSeq Acc Id: XM_039092042   ⟹   XP_038947970
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21479,340,523 - 79,460,923 (-)NCBI
RefSeq Acc Id: XM_039092043   ⟹   XP_038947971
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21479,340,523 - 79,460,923 (-)NCBI
RefSeq Acc Id: XM_039092045   ⟹   XP_038947973
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21479,340,523 - 79,460,918 (-)NCBI
RefSeq Acc Id: XM_039092046   ⟹   XP_038947974
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21479,340,523 - 79,460,923 (-)NCBI
RefSeq Acc Id: XM_039092047   ⟹   XP_038947975
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21479,340,523 - 79,460,923 (-)NCBI
RefSeq Acc Id: XM_039092048   ⟹   XP_038947976
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21479,340,523 - 79,460,923 (-)NCBI
RefSeq Acc Id: XM_039092049   ⟹   XP_038947977
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21479,340,523 - 79,460,923 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001012038   ⟸   NM_001012038
- UniProtKB: Q5PQT2 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006251367   ⟸   XM_006251305
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K8C7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251364   ⟸   XM_006251302
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K8C7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251366   ⟸   XM_006251304
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K8C7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008768523   ⟸   XM_008770301
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K8C7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000054309   ⟸   ENSRNOT00000057501
RefSeq Acc Id: ENSRNOP00000074555   ⟸   ENSRNOT00000078838
RefSeq Acc Id: XP_038947971   ⟸   XM_039092043
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038947970   ⟸   XM_039092042
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038947977   ⟸   XM_039092049
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038947976   ⟸   XM_039092048
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038947975   ⟸   XM_039092047
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038947974   ⟸   XM_039092046
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038947969   ⟸   XM_039092041
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038947968   ⟸   XM_039092040
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038947973   ⟸   XM_039092045
- Peptide Label: isoform X2
Protein Domains
FYVE-type   Myotubularin phosphatase

Transcriptome

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

Promoters
RGD ID:13699446
Promoter ID:EPDNEW_R9970
Type:multiple initiation site
Name:Mtmr3_1
Description:myotubularin related protein 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01484,820,437 - 84,820,497EPDNEW

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)
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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
COP/CrCrl (MCW & UW)
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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)
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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
F344/NRrrc (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
FHH/EurMcwi (MCW)
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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)
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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
FHL/EurMcwi (MCW)
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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)
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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
GH/OmrMcwi (MCW)
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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)
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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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
M520/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
MHS/Gib (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
MNS/Gib (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
MR/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
SBH/Ygl (MCW)
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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)
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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
SBN/Ygl (MCW)
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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)
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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
SHR/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
SHRSP/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
SR/JrHsd (MCW)
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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)
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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
SS/Jr (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
SS/JrHsdMcwi (MCW)
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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)
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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
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:1310972 AgrOrtholog
Ensembl Genes ENSRNOG00000007120 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000054309 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000074555 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000057501 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000078838 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.90.190.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7109341 IMAGE-MGC_LOAD
InterPro MTMR3_PH-GRAM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Myotubularin-like_Pase_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Myotubularin_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prot-tyrosine_phosphatase-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_Pase_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_Pase_cat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_FYVE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_FYVE-rel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_FYVE_PHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:305482 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93777 IMAGE-MGC_LOAD
NCBI Gene 305482 ENTREZGENE
PANTHER PTHR10807 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam FYVE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Myotub-related UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Mtmr3 PhenoGen
PROSITE PPASE_MYOTUBULARIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TYR_PHOSPHATASE_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZF_FYVE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART FYVE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTPc_motif UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF52799 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF57903 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K8C7 ENTREZGENE, UniProtKB/TrEMBL
  MTMR3_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-12-06 Mtmr3  myotubularin related protein 3  Mtmr3_predicted  myotubularin related protein 3 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Mtmr3_predicted  myotubularin related protein 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED