Tomm6 (translocase of outer mitochondrial membrane 6) - Rat Genome Database

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Gene: Tomm6 (translocase of outer mitochondrial membrane 6) Rattus norvegicus
Analyze
Symbol: Tomm6
Name: translocase of outer mitochondrial membrane 6
RGD ID: 1583567
Description: Predicted to be active in mitochondrion. Orthologous to human TOMM6 (translocase of outer mitochondrial membrane 6); PARTICIPATES IN beta-barrel pathway of mitochondrial protein import; carrier pathway of mitochondrial protein import; presequence pathway of mitochondrial protein import; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC681123; LOC681123; mitochondrial import receptor subunit TOM6 homolog; prickle homolog 4; Prickle4; translocase of outer mitochondrial membrane 6 homolog; translocase of outer mitochondrial membrane 6 homolog (yeast)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8920,801,806 - 20,803,174 (+)NCBIGRCr8
mRatBN7.2913,304,269 - 13,305,637 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx921,884,264 - 21,885,659 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0926,948,349 - 26,949,740 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0925,247,670 - 25,249,065 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0915,313,346 - 15,314,872 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl915,313,523 - 15,314,435 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0914,237,422 - 14,239,082 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.498,770,266 - 8,771,794 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera911,056,548 - 11,058,097 (+)NCBICelera
Cytogenetic Map9q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Biogenesis of mitochondrial outer membrane proteins, problems and diseases. Ellenrieder L, etal., Biol Chem. 2015 Oct 1;396(11):1199-213. doi: 10.1515/hsz-2015-0170.
2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. Assembly of beta-barrel proteins in the mitochondrial outer membrane. Hohr AI, etal., Biochim Biophys Acta. 2015 Jan;1853(1):74-88. doi: 10.1016/j.bbamcr.2014.10.006. Epub 2014 Oct 8.
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Comprehensive gene review and curation RGD comprehensive gene curation
6. Unlocking the presequence import pathway. Schulz C, etal., Trends Cell Biol. 2015 May;25(5):265-75. doi: 10.1016/j.tcb.2014.12.001. Epub 2014 Dec 23.
7. Cooperation of protein machineries in mitochondrial protein sorting. Wenz LS, etal., Biochim Biophys Acta. 2015 May;1853(5):1119-29. doi: 10.1016/j.bbamcr.2015.01.012. Epub 2015 Jan 26.
Additional References at PubMed
PMID:18614015  


Genomics

Comparative Map Data
Tomm6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8920,801,806 - 20,803,174 (+)NCBIGRCr8
mRatBN7.2913,304,269 - 13,305,637 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx921,884,264 - 21,885,659 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0926,948,349 - 26,949,740 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0925,247,670 - 25,249,065 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0915,313,346 - 15,314,872 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl915,313,523 - 15,314,435 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0914,237,422 - 14,239,082 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.498,770,266 - 8,771,794 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera911,056,548 - 11,058,097 (+)NCBICelera
Cytogenetic Map9q12NCBI
TOMM6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38641,787,694 - 41,789,895 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl641,787,662 - 41,789,898 (+)EnsemblGRCh38hg38GRCh38
GRCh37641,755,432 - 41,757,633 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36641,755,181 - 41,757,634 (+)NCBINCBI36Build 36hg18NCBI36
Celera643,308,511 - 43,310,964 (+)NCBICelera
Cytogenetic Map6p21.1NCBI
HuRef641,473,902 - 41,476,358 (+)NCBIHuRef
CHM1_1641,758,556 - 41,760,993 (+)NCBICHM1_1
T2T-CHM13v2.0641,616,256 - 41,618,460 (+)NCBIT2T-CHM13v2.0
Tomm6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391747,997,570 - 47,999,311 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1747,997,571 - 47,999,311 (-)EnsemblGRCm39 Ensembl
GRCm381747,686,645 - 47,688,386 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1747,686,646 - 47,688,386 (-)EnsemblGRCm38mm10GRCm38
MGSCv371747,823,594 - 47,825,335 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361747,149,931 - 47,151,577 (-)NCBIMGSCv36mm8
MGSCv361746,713,792 - 46,715,438 (-)NCBIMGSCv36mm8
Celera1751,123,550 - 51,125,054 (-)NCBICelera
Cytogenetic Map17CNCBI
cM Map1723.87NCBI
Tomm6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554378,183,219 - 8,184,602 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554378,183,219 - 8,184,602 (+)NCBIChiLan1.0ChiLan1.0
TOMM6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2556,279,899 - 56,364,018 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1652,149,662 - 52,234,010 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0641,372,723 - 41,456,258 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1642,676,825 - 42,678,679 (+)NCBIpanpan1.1PanPan1.1panPan2
TOMM6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11210,473,592 - 10,484,374 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1210,473,592 - 10,474,864 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1210,503,030 - 10,513,859 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01210,953,801 - 10,964,628 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1210,952,850 - 10,955,126 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11210,484,373 - 10,495,202 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01210,568,053 - 10,578,880 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01210,661,769 - 10,672,596 (+)NCBIUU_Cfam_GSD_1.0
Tomm6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494645,952,077 - 45,953,661 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647618,006,543 - 18,008,871 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647618,006,541 - 18,008,872 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TOMM6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl736,969,909 - 36,978,283 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1736,976,478 - 36,976,878 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2742,385,968 - 42,386,368 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TOMM6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11730,373,701 - 30,376,124 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1730,373,701 - 30,375,892 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604441,781,665 - 41,783,917 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tomm6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475417,276,494 - 17,282,676 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475417,276,487 - 17,282,770 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tomm6
7 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:22
Count of miRNA genes:20
Interacting mature miRNAs:22
Transcripts:ENSRNOT00000070805
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054141Gmadr4Adrenal mass QTL 42.450.0074adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)9114209783Rat
70226Eae4Experimental allergic encephalomyelitis QTL 4nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)9125661317Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9125408446254084Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9125408446254084Rat
1578675Bss17Bone structure and strength QTL 173.8femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)9336865213533896Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9510982642921101Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9510982650109826Rat
11353947Bp392Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)9728325252283252Rat
61450Ciaa3CIA Autoantibody QTL 36.5blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)9795472022071169Rat
9589133Insul26Insulin level QTL 2617.960.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)9895256053952560Rat
7411609Foco16Food consumption QTL 1625.60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9895256053952560Rat

Markers in Region
RH127416  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2913,305,149 - 13,305,532 (+)MAPPERmRatBN7.2
Rnor_6.0915,314,385 - 15,314,767NCBIRnor6.0
Rnor_5.0914,238,595 - 14,238,977UniSTSRnor5.0
RGSC_v3.498,771,305 - 8,771,687UniSTSRGSC3.4
Celera911,057,610 - 11,057,992UniSTS
RH 3.4 Map960.2UniSTS
Cytogenetic Map9q12UniSTS
RH133301  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2913,305,767 - 13,305,962 (+)MAPPERmRatBN7.2
Rnor_6.0915,315,003 - 15,315,197NCBIRnor6.0
Rnor_5.0914,239,213 - 14,239,407UniSTSRnor5.0
RGSC_v3.498,771,923 - 8,772,117UniSTSRGSC3.4
Celera911,058,228 - 11,058,422UniSTS
RH 3.4 Map944.2UniSTS
Cytogenetic Map9q12UniSTS
RH129299  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2913,305,385 - 13,305,595 (+)MAPPERmRatBN7.2
Rnor_6.0915,314,621 - 15,314,830NCBIRnor6.0
Rnor_5.0914,238,831 - 14,239,040UniSTSRnor5.0
RGSC_v3.498,771,541 - 8,771,750UniSTSRGSC3.4
Celera911,057,846 - 11,058,055UniSTS
Cytogenetic Map9q12UniSTS
AA891796  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2913,305,381 - 13,305,590 (+)MAPPERmRatBN7.2
Rnor_6.0915,314,617 - 15,314,825NCBIRnor6.0
Rnor_5.0914,238,827 - 14,239,035UniSTSRnor5.0
RGSC_v3.498,771,537 - 8,771,745UniSTSRGSC3.4
Celera911,057,842 - 11,058,050UniSTS
RH 3.4 Map958.8UniSTS
Cytogenetic Map9q12UniSTS


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 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000070805   ⟹   ENSRNOP00000065096
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl915,313,523 - 15,314,435 (+)Ensembl
RefSeq Acc Id: NM_001399365   ⟹   NP_001386294
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8920,801,806 - 20,803,174 (+)NCBI
mRatBN7.2913,304,269 - 13,305,637 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001386294 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM18894 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000065096   ⟸   ENSRNOT00000070805
RefSeq Acc Id: NP_001386294   ⟸   NM_001399365
- UniProtKB: A6JII8 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZJS3-F1-model_v2 AlphaFold D3ZJS3 1-74 view protein structure

Transcriptome

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

Promoters
RGD ID:13696502
Promoter ID:EPDNEW_R7019
Type:initiation region
Name:Tomm6_1
Description:translocase of outer mitochondrial membrane 6
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_6.0915,313,478 - 15,313,538EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1583567 AgrOrtholog
BioCyc Gene G2FUF-28277 BioCyc
Ensembl Genes ENSRNOG00000046316 Ensembl
InterPro TOMM6 UniProtKB/TrEMBL
KEGG Report rno:681123 UniProtKB/TrEMBL
NCBI Gene 681123 ENTREZGENE
PANTHER MITOCHONDRIAL IMPORT RECEPTOR SUBUNIT TOM6 HOMOLOG UniProtKB/TrEMBL
  MITOCHONDRIAL IMPORT RECEPTOR SUBUNIT TOM6 HOMOLOG UniProtKB/TrEMBL
Pfam TOM6p UniProtKB/TrEMBL
PhenoGen Tomm6 PhenoGen
RatGTEx ENSRNOG00000046316 RatGTEx
UniProt A6JII8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-01 Tomm6  translocase of outer mitochondrial membrane 6  Tomm6  translocase of outer mitochondrial membrane 6 homolog (yeast)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-04 Tomm6  translocase of outer mitochondrial membrane 6 homolog (yeast)  Prickle4  prickle homolog 4 (Drosophila)  Symbol and Name updated 1299863 APPROVED
2008-03-05 Prickle4  prickle homolog 4 (Drosophila)  LOC681123  hypothetical protein LOC681123  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC681123  hypothetical protein LOC681123      Symbol and Name status set to provisional 70820 PROVISIONAL