Letm2 (leucine zipper and EF-hand containing transmembrane protein 2) - Rat Genome Database

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Gene: Letm2 (leucine zipper and EF-hand containing transmembrane protein 2) Rattus norvegicus
Analyze
Symbol: Letm2
Name: leucine zipper and EF-hand containing transmembrane protein 2
RGD ID: 1311220
Description: Predicted to enable ribosome binding activity. Predicted to be involved in cellular metal ion homeostasis. Predicted to be located in mitochondrial inner membrane. Predicted to be integral component of membrane. Orthologous to human LETM2 (leucine zipper and EF-hand containing transmembrane protein 2); INTERACTS WITH 2-methoxyethanol; 3,3',4,4',5-pentachlorobiphenyl; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LETM1 and EF-hand domain-containing protein 2; LETM1 domain-containing protein LETM2, mitochondrial; LETM2S; leucine zipper-, EF-hand motif- containing transmembrane protein 2; leucine zipper-, EF-hand motif- containing transmembrane protein 2S; leucine zipper-EF-hand containing transmembrane protein 2; leucine zipper-EF-hand-containing transmembrane protein 1-like; LOC361169
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21666,464,958 - 66,489,640 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1666,469,111 - 66,489,704 (+)Ensembl
Rnor_6.01671,241,335 - 71,261,841 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1671,241,335 - 71,261,840 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01670,900,977 - 70,921,167 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41670,844,079 - 70,865,537 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11670,844,343 - 70,865,801 (+)NCBI
Celera1664,377,723 - 64,398,194 (+)NCBICelera
Cytogenetic Map16q12.4NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:12477932   PMID:18628306  


Genomics

Comparative Map Data
Letm2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21666,464,958 - 66,489,640 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1666,469,111 - 66,489,704 (+)Ensembl
Rnor_6.01671,241,335 - 71,261,841 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1671,241,335 - 71,261,840 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01670,900,977 - 70,921,167 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41670,844,079 - 70,865,537 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11670,844,343 - 70,865,801 (+)NCBI
Celera1664,377,723 - 64,398,194 (+)NCBICelera
Cytogenetic Map16q12.4NCBI
LETM2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl838,386,207 - 38,409,527 (+)EnsemblGRCh38hg38GRCh38
GRCh38838,382,505 - 38,409,527 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37838,243,994 - 38,267,045 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36838,363,177 - 38,385,218 (+)NCBINCBI36hg18NCBI36
Build 34838,363,176 - 38,385,218NCBI
Celera837,197,089 - 37,219,038 (+)NCBI
Cytogenetic Map8p11.23NCBI
HuRef836,778,172 - 36,800,051 (+)NCBIHuRef
CHM1_1838,445,848 - 38,467,966 (+)NCBICHM1_1
Letm2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39826,068,494 - 26,088,005 (-)NCBIGRCm39mm39
GRCm39 Ensembl826,068,506 - 26,087,598 (-)Ensembl
GRCm38825,578,478 - 25,597,989 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl825,578,490 - 25,597,582 (-)EnsemblGRCm38mm10GRCm38
MGSCv37826,688,962 - 26,707,959 (-)NCBIGRCm37mm9NCBIm37
MGSCv36827,057,205 - 27,063,041 (-)NCBImm8
Celera827,046,850 - 27,065,845 (-)NCBICelera
Cytogenetic Map8A2NCBI
Letm2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546313,991,890 - 14,010,475 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495546313,990,353 - 14,012,911 (+)NCBIChiLan1.0ChiLan1.0
LETM2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1834,864,491 - 34,889,215 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl834,864,516 - 34,888,534 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0837,687,640 - 37,711,531 (+)NCBIMhudiblu_PPA_v0panPan3
LETM2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11627,082,167 - 27,102,172 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1627,078,902 - 27,100,591 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1627,600,542 - 27,619,491 (-)NCBI
ROS_Cfam_1.01628,981,489 - 29,000,664 (-)NCBI
UMICH_Zoey_3.11627,204,920 - 27,223,274 (-)NCBI
UNSW_CanFamBas_1.01627,782,005 - 27,800,922 (-)NCBI
UU_Cfam_GSD_1.01627,820,960 - 27,839,900 (-)NCBI
Letm2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494349,702,728 - 49,724,283 (-)NCBI
SpeTri2.0NW_0049367101,736,010 - 1,758,480 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LETM2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1548,110,652 - 48,131,991 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11548,110,645 - 48,132,429 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21555,272,957 - 55,294,480 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LETM2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1836,399,207 - 36,423,548 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl836,401,927 - 36,422,835 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660525,564,170 - 5,590,167 (-)NCBIVero_WHO_p1.0

Position Markers
AW533592  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21666,489,401 - 66,489,551 (+)MAPPERmRatBN7.2
Rnor_6.01671,261,608 - 71,261,757NCBIRnor6.0
Rnor_5.01670,920,934 - 70,921,083UniSTSRnor5.0
RGSC_v3.41670,865,304 - 70,865,453UniSTSRGSC3.4
Celera1664,397,961 - 64,398,110UniSTS
RH 3.4 Map16621.4UniSTS
Cytogenetic Map16q12.4UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)161900443575226532Rat
2302057Pia29Pristane induced arthritis QTL 293.60.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)162173597566735975Rat
8694453Bw172Body weight QTL 1728.330.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)162432551369325513Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)162515279370152793Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)163528887080288870Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)163775215682752156Rat
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)163775215682752156Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164239634584729064Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165272646484729064Rat
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165272646484729064Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165272646484729064Rat
631525Pia14Pristane induced arthritis QTL 144.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)165571108783402471Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:96
Count of miRNA genes:41
Interacting mature miRNAs:48
Transcripts:ENSRNOT00000030489, ENSRNOT00000066144
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 2 2 54 32 2
Low 3 43 55 41 17 41 8 11 20 35 9 9 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001012158 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094646 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094647 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094648 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094649 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094650 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094651 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094652 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094653 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094654 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094655 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094656 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094657 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094658 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094659 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094660 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094661 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094662 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094663 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094664 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094665 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094666 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094667 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094668 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094669 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB296367 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB296368 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC087079 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000283 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000030489   ⟹   ENSRNOP00000032494
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1666,469,111 - 66,489,634 (+)Ensembl
Rnor_6.0 Ensembl1671,242,470 - 71,261,591 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000066144   ⟹   ENSRNOP00000062009
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1666,469,111 - 66,489,704 (+)Ensembl
Rnor_6.0 Ensembl1671,241,335 - 71,261,840 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000100606   ⟹   ENSRNOP00000088759
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1666,469,111 - 66,480,622 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000105535   ⟹   ENSRNOP00000095230
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1666,469,656 - 66,474,007 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000106112   ⟹   ENSRNOP00000081598
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1666,469,190 - 66,475,275 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000109594   ⟹   ENSRNOP00000083182
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1666,469,111 - 66,489,671 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000118537   ⟹   ENSRNOP00000081903
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1666,472,592 - 66,489,634 (+)Ensembl
RefSeq Acc Id: NM_001012158   ⟹   NP_001012158
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,469,111 - 66,489,635 (+)NCBI
Rnor_6.01671,241,335 - 71,261,841 (+)NCBI
Rnor_5.01670,900,977 - 70,921,167 (+)NCBI
RGSC_v3.41670,844,079 - 70,865,537 (+)RGD
Celera1664,377,723 - 64,398,194 (+)RGD
Sequence:
RefSeq Acc Id: XM_039094646   ⟹   XP_038950574
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,453 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094647   ⟹   XP_038950575
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,453 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094648   ⟹   XP_038950576
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,452 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094649   ⟹   XP_038950577
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,453 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094650   ⟹   XP_038950578
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,451 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094651   ⟹   XP_038950579
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,451 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094652   ⟹   XP_038950580
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,453 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094653   ⟹   XP_038950581
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,451 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094654   ⟹   XP_038950582
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,453 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094655   ⟹   XP_038950583
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,452 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094656   ⟹   XP_038950584
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,451 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094657   ⟹   XP_038950585
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,451 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094658   ⟹   XP_038950586
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,451 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094659   ⟹   XP_038950587
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,451 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094660   ⟹   XP_038950588
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,464,958 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094661   ⟹   XP_038950589
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,462 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094662   ⟹   XP_038950590
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,462 - 66,488,526 (+)NCBI
RefSeq Acc Id: XM_039094663   ⟹   XP_038950591
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,381 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094664   ⟹   XP_038950592
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,470 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094665   ⟹   XP_038950593
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,480 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094666   ⟹   XP_038950594
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,480 - 66,488,526 (+)NCBI
RefSeq Acc Id: XM_039094667   ⟹   XP_038950595
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,469 - 66,489,385 (+)NCBI
RefSeq Acc Id: XM_039094668   ⟹   XP_038950596
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,349 - 66,489,640 (+)NCBI
RefSeq Acc Id: XM_039094669   ⟹   XP_038950597
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21666,468,454 - 66,476,050 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001012158 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950574 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950575 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950576 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950577 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950578 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950579 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950580 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950581 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950582 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950583 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950584 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950585 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950586 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950587 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950588 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950589 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950590 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950591 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950592 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950593 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950594 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950595 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950596 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950597 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH87079 (Get FASTA)   NCBI Sequence Viewer  
  BAF79864 (Get FASTA)   NCBI Sequence Viewer  
  BAF79865 (Get FASTA)   NCBI Sequence Viewer  
  Q5PQQ5 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001012158   ⟸   NM_001012158
- Peptide Label: precursor
- UniProtKB: Q5PQQ5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000062009   ⟸   ENSRNOT00000066144
RefSeq Acc Id: ENSRNOP00000032494   ⟸   ENSRNOT00000030489
RefSeq Acc Id: XP_038950588   ⟸   XM_039094660
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950596   ⟸   XM_039094668
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038950591   ⟸   XM_039094663
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038950579   ⟸   XM_039094651
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950578   ⟸   XM_039094650
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950581   ⟸   XM_039094653
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950584   ⟸   XM_039094656
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950585   ⟸   XM_039094657
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950587   ⟸   XM_039094659
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950586   ⟸   XM_039094658
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950576   ⟸   XM_039094648
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950583   ⟸   XM_039094655
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950575   ⟸   XM_039094647
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950574   ⟸   XM_039094646
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950577   ⟸   XM_039094649
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950580   ⟸   XM_039094652
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950582   ⟸   XM_039094654
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950597   ⟸   XM_039094669
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038950589   ⟸   XM_039094661
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038950590   ⟸   XM_039094662
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038950595   ⟸   XM_039094667
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038950592   ⟸   XM_039094664
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038950593   ⟸   XM_039094665
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038950594   ⟸   XM_039094666
- Peptide Label: isoform X7
RefSeq Acc Id: ENSRNOP00000095230   ⟸   ENSRNOT00000105535
RefSeq Acc Id: ENSRNOP00000083182   ⟸   ENSRNOT00000109594
RefSeq Acc Id: ENSRNOP00000088759   ⟸   ENSRNOT00000100606
RefSeq Acc Id: ENSRNOP00000081903   ⟸   ENSRNOT00000118537
RefSeq Acc Id: ENSRNOP00000081598   ⟸   ENSRNOT00000106112
Protein Domains
Letm1 RBD

Transcriptome

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

Promoters
RGD ID:13700170
Promoter ID:EPDNEW_R10694
Type:single initiation site
Name:Letm2_1
Description:leucine zipper and EF-hand containing transmembrane protein 2
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_6.01671,241,337 - 71,241,397EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/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)
ACI/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
ACI/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/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
BBDP/Wor (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
BN-Lx/CubMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (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
BUF/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
DA/OlaHsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
F344/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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/FarMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LL/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LN/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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:1311220 AgrOrtholog
Ensembl Genes ENSRNOG00000026180 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000032494 UniProtKB/TrEMBL
  ENSRNOP00000062009 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000030489 UniProtKB/TrEMBL
  ENSRNOT00000066144 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7135920 IMAGE-MGC_LOAD
InterPro LETM1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LETM1/MDM38-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LETM1_RBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:361169 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94537 IMAGE-MGC_LOAD
NCBI Gene 361169 ENTREZGENE
PANTHER PTHR14009 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam LETM1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Letm2 PhenoGen
PROSITE LETM1_RBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt D3ZXQ6_RAT UniProtKB/TrEMBL
  F1LP77_RAT UniProtKB/TrEMBL
  LETM2_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary A7VL16 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-08 Letm2  leucine zipper and EF-hand containing transmembrane protein 2  Letm2  leucine zipper-EF-hand containing transmembrane protein 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Letm2  leucine zipper-EF-hand containing transmembrane protein 2  Letm2_predicted  leucine zipper-EF-hand containing transmembrane protein 2 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Letm2_predicted  leucine zipper-EF-hand containing transmembrane protein 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED