Tom1l2 (target of myb1 like 2 membrane trafficking protein) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  FTP Download |  REST API |  Citing RGD |  Contact   
Gene: Tom1l2 (target of myb1 like 2 membrane trafficking protein) Rattus norvegicus
Analyze
Symbol: Tom1l2
Name: target of myb1 like 2 membrane trafficking protein
RGD ID: 1306728
Description: Predicted to have clathrin binding activity and protein kinase binding activity. Predicted to be involved in negative regulation of mitotic nuclear division and signal transduction. Predicted to localize to endosome and membrane. Orthologous to human TOM1L2 (target of myb1 like 2 membrane trafficking protein); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acetamide; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC360537; target of myb1-like 2; target of myb1-like 2 (chicken); TOM1-like protein 2
Orthologs:
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01046,599,392 - 46,720,921 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1046,602,231 - 46,720,910 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01046,354,436 - 46,475,909 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41046,503,435 - 46,612,883 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11046,506,694 - 46,626,491 (-)NCBI
Celera1044,306,563 - 44,415,406 (-)NCBICelera
Cytogenetic Map10q22NCBI
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

Biological Process

Cellular Component
endosome  (IBA)
membrane  (IBA)

Molecular Function

References

Additional References at PubMed
PMID:16412388   PMID:16479011   PMID:19056867   PMID:23376485   PMID:23533145  


Genomics

Comparative Map Data
Tom1l2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01046,599,392 - 46,720,921 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1046,602,231 - 46,720,910 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01046,354,436 - 46,475,909 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41046,503,435 - 46,612,883 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11046,506,694 - 46,626,491 (-)NCBI
Celera1044,306,563 - 44,415,406 (-)NCBICelera
Cytogenetic Map10q22NCBI
TOM1L2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1717,843,511 - 17,972,422 (-)EnsemblGRCh38hg38GRCh38
GRCh381717,843,508 - 17,972,406 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371717,746,822 - 17,875,784 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361717,687,547 - 17,816,509 (-)NCBINCBI36hg18NCBI36
Build 341717,690,866 - 17,816,443NCBI
Celera1718,687,486 - 18,816,554 (-)NCBI
Cytogenetic Map17p11.2NCBI
HuRef1717,500,565 - 17,629,531 (-)NCBIHuRef
CHM1_11717,755,606 - 17,884,602 (-)NCBICHM1_1
Tom1l2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391160,114,622 - 60,243,766 (-)NCBI
GRCm381160,226,714 - 60,352,932 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1160,226,714 - 60,352,905 (-)EnsemblGRCm38mm10GRCm38
MGSCv371160,040,216 - 60,166,407 (-)NCBIGRCm37mm9NCBIm37
MGSCv361160,042,909 - 60,169,100 (-)NCBImm8
Celera1166,594,747 - 66,648,912 (+)NCBICelera
Cytogenetic Map11B2NCBI
Tom1l2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495557793,480 - 153,437 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495557793,877 - 153,381 (+)NCBIChiLan1.0ChiLan1.0
TOM1L2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11738,272,362 - 38,399,178 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1738,272,362 - 38,399,178 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01733,324,590 - 33,451,688 (+)NCBIMhudiblu_PPA_v0panPan3
TOM1L2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl541,535,005 - 41,650,717 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1541,535,069 - 41,654,609 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Tom1l2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049367411,436,845 - 1,555,533 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TOM1L2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1260,652,189 - 60,729,259 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11260,652,153 - 60,729,257 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
TOM1L2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl1616,881,156 - 17,009,492 (-)Ensembl
ChlSab1.11616,881,219 - 17,009,552 (-)NCBI
Tom1l2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248493,466,572 - 3,594,397 (+)NCBI

Position Markers
D10Mco13  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01046,655,710 - 46,655,997NCBIRnor6.0
Rnor_5.01046,410,570 - 46,410,857UniSTSRnor5.0
RGSC_v3.41046,546,807 - 46,547,094UniSTSRGSC3.4
RGSC_v3.41046,546,806 - 46,547,094RGDRGSC3.4
RGSC_v3.11046,560,429 - 46,560,717RGD
Celera1044,350,410 - 44,350,697UniSTS
Cytogenetic Map10q22UniSTS
RH143483  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01046,609,566 - 46,609,674NCBIRnor6.0
Rnor_5.01046,364,515 - 46,364,623UniSTSRnor5.0
RGSC_v3.41046,500,362 - 46,500,470UniSTSRGSC3.4
Celera1044,303,490 - 44,303,598UniSTS
Cytogenetic Map10q22UniSTS
RH 3.4 Map10530.48UniSTS
BF389720  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01046,611,800 - 46,612,012NCBIRnor6.0
Rnor_5.01046,366,749 - 46,366,961UniSTSRnor5.0
RGSC_v3.41046,502,596 - 46,502,808UniSTSRGSC3.4
Celera1044,305,724 - 44,305,936UniSTS
Cytogenetic Map10q22UniSTS
RH 3.4 Map10524.99UniSTS
RH135141  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01046,602,105 - 46,602,284NCBIRnor6.0
Rnor_5.01046,357,148 - 46,357,327UniSTSRnor5.0
RGSC_v3.41046,492,824 - 46,493,003UniSTSRGSC3.4
Celera1044,296,019 - 44,296,198UniSTS
Cytogenetic Map10q22UniSTS
RH 3.4 Map10526.39UniSTS
RH137494  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01046,695,665 - 46,695,855NCBIRnor6.0
Rnor_5.01046,450,662 - 46,450,852UniSTSRnor5.0
RGSC_v3.41046,586,647 - 46,586,837UniSTSRGSC3.4
Celera1044,390,171 - 44,390,361UniSTS
Cytogenetic Map10q22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1076442166221621Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10587753664401490Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10622909575983805Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10642907599492409Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10752145052521450Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109841807108540162Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101263951357639513Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101263951357639513Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101263951357639513Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101482789492423564Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014827894107857673Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014827894110992275Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101537547462469074Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101646873661468736Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11712154262121542Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11712154262121542Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101824639453637634Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101940281464402814Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)1020170031102897474Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102152390683549467Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)12152390690312401Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102152390690312401Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102170776664648311Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102290149793886300Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102386101566539843Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1023861015112626471Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)102488408447487910Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102723753064648311Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)1027237530101482600Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1027237530102427718Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102878928073789280Rat
1600371Mcs21Mammary carcinoma susceptibility QTL 213mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)103002135454057745Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103009990975099909Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103009990975099909Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103098380575983805Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103191939778343192Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103317903078179030Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103334319278343192Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103513942480139424Rat
61332Eau3Experimental allergic uveoretinitis QTL 30.004uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)103566946546851407Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)103618592982675365Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)103618592995845311Rat
1354614Hpcl1Hepatic cholesterol level QTL 13.3liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)103658437353645194Rat
1358897Stresp6Stress response QTL 64.170.022blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)103658437366539843Rat
61441Btemp1Thermal response to stress QTL 14body temperature trait (VT:0005535)core body temperature (CMO:0001036)103658456066015527Rat
2317042Aia20Adjuvant induced arthritis QTL 203.38joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)104051404485514044Rat
2317043Aia7Adjuvant induced arthritis QTL 73.82joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)104051404485514044Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1041260363106105607Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1041260363107857673Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1041260363107857673Rat
8552805Bw145Body weight QTL 1452.2body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)104318865981042642Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1043289657108540162Rat
61463Bp12Blood pressure QTL 126.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104370495588704955Rat
11528631Bss117Bone structure and strength QTL 1176.410.000000389femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)104651052546995276Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104659302198939209Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:132
Count of miRNA genes:79
Interacting mature miRNAs:107
Transcripts:ENSRNOT00000067866
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 21 5 17 5 8 11 74 35 39 11 8
Low 36 36 2 36 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001108277 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006246506 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006246507 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006246508 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008767833 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008767834 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008767835 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017597371 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017597372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017597373 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAHX01064231 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01064232 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01064233 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01064234 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC116201 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC120835 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC128154 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473948 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000067866   ⟹   ENSRNOP00000061635
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1046,612,639 - 46,720,910 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000083093   ⟹   ENSRNOP00000075039
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1046,602,231 - 46,720,907 (-)Ensembl
RefSeq Acc Id: NM_001108277   ⟹   NP_001101747
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01046,612,639 - 46,720,910 (-)NCBI
Rnor_5.01046,354,436 - 46,475,909 (-)NCBI
RGSC_v3.41046,503,435 - 46,612,883 (-)RGD
Celera1044,306,563 - 44,415,406 (-)RGD
Sequence:
RefSeq Acc Id: XM_006246506   ⟹   XP_006246568
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01046,599,392 - 46,720,921 (-)NCBI
Rnor_5.01046,354,436 - 46,475,909 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006246507   ⟹   XP_006246569
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01046,599,392 - 46,720,921 (-)NCBI
Rnor_5.01046,354,436 - 46,475,909 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006246508   ⟹   XP_006246570
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01046,599,392 - 46,720,921 (-)NCBI
Rnor_5.01046,354,436 - 46,475,909 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008767833   ⟹   XP_008766055
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01046,603,835 - 46,720,921 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008767834   ⟹   XP_008766056
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01046,603,835 - 46,720,921 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008767835   ⟹   XP_008766057
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01046,603,834 - 46,667,950 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017597371   ⟹   XP_017452860
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01046,603,834 - 46,653,159 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017597372   ⟹   XP_017452861
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01046,603,833 - 46,720,921 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017597373   ⟹   XP_017452862
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01046,599,392 - 46,720,921 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001101747   ⟸   NM_001108277
- UniProtKB: D4A6C9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006246569   ⟸   XM_006246507
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006246568   ⟸   XM_006246506
- Peptide Label: isoform X3
- UniProtKB: A0A0G2K9L2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006246570   ⟸   XM_006246508
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_008766057   ⟸   XM_008767835
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008766056   ⟸   XM_008767834
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008766055   ⟸   XM_008767833
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017452862   ⟸   XM_017597373
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_017452861   ⟸   XM_017597372
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017452860   ⟸   XM_017597371
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000061635   ⟸   ENSRNOT00000067866
RefSeq Acc Id: ENSRNOP00000075039   ⟸   ENSRNOT00000083093
Protein Domains
GAT   VHS

Transcriptome

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

Promoters
RGD ID:13697250
Promoter ID:EPDNEW_R7772
Type:multiple initiation site
Name:Tom1l2_1
Description:target of myb1 like 2 membrane trafficking protein
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_6.01046,720,895 - 46,720,955EPDNEW

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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306728 AgrOrtholog
Ensembl Genes ENSRNOG00000003590 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000061635 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000075039 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000067866 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000083093 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 1.20.58.160 UniProtKB/TrEMBL
  1.25.40.90 UniProtKB/TrEMBL
InterPro ENTH_VHS UniProtKB/TrEMBL
  GAT UniProtKB/TrEMBL
  GAT_sf UniProtKB/TrEMBL
  TOM1 UniProtKB/TrEMBL
  TOM1L2 UniProtKB/TrEMBL
  VHS_dom UniProtKB/TrEMBL
KEGG Report rno:360537 UniProtKB/TrEMBL
NCBI Gene 360537 ENTREZGENE
PANTHER PTHR13856:SF31 UniProtKB/TrEMBL
Pfam GAT UniProtKB/TrEMBL
  VHS UniProtKB/TrEMBL
PhenoGen Tom1l2 PhenoGen
PIRSF TOM1 UniProtKB/TrEMBL
PROSITE GAT UniProtKB/TrEMBL
  VHS UniProtKB/TrEMBL
SMART VHS UniProtKB/TrEMBL
Superfamily-SCOP SSF48464 UniProtKB/TrEMBL
UniGene Rn.219702 ENTREZGENE
UniProt A0A0G2K9L2 ENTREZGENE, UniProtKB/TrEMBL
  D4A6C9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-06-26 Tom1l2  target of myb1 like 2 membrane trafficking protein  Tom1l2  target of myb1-like 2 (chicken)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Tom1l2  target of myb1-like 2 (chicken)   Tom1l2_predicted  target of myb1-like 2 (chicken) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Tom1l2_predicted  target of myb1-like 2 (chicken) (predicted)      Symbol and Name status set to approved 70820 APPROVED