Timm13 (translocase of inner mitochondrial membrane 13) - Rat Genome Database

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Gene: Timm13 (translocase of inner mitochondrial membrane 13) Rattus norvegicus
Analyze
Symbol: Timm13
Name: translocase of inner mitochondrial membrane 13
RGD ID: 628845
Description: Predicted to enable metal ion binding activity. Predicted to be involved in protein insertion into mitochondrial inner membrane. Predicted to be located in fibrillar center and mitochondrial inner membrane. Predicted to be part of mitochondrial intermembrane space protein transporter complex. Orthologous to human TIMM13 (translocase of inner mitochondrial membrane 13); PARTICIPATES IN beta-barrel pathway of mitochondrial protein import; INTERACTS WITH (R)-noradrenaline; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: mitochondrial import inner membrane translocase subunit Tim13; translocase of inner mitochondrial membrane 13 homolog; translocase of inner mitochondrial membrane 13 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
GRCr879,459,490 - 9,460,849 (+)NCBIGRCr8
mRatBN7.278,809,069 - 8,810,172 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl78,809,058 - 8,809,910 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx711,692,982 - 11,694,085 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0713,568,490 - 13,569,593 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0711,435,013 - 11,436,116 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0711,677,340 - 11,678,443 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl711,677,340 - 11,678,442 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0711,844,860 - 11,845,963 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4710,319,959 - 10,321,062 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera76,993,416 - 6,994,519 (+)NCBICelera
Cytogenetic Map7q11NCBI
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
(1->4)-beta-D-glucan  (ISO)
(R)-noradrenaline  (EXP)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-hydroxypropanoic acid  (ISO)
all-trans-retinoic acid  (ISO)
amiodarone  (ISO)
ammonium chloride  (EXP)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
Brodifacoum  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
clobetasol  (ISO)
clofibric acid  (EXP)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
corosolic acid  (ISO)
Dibutyl phosphate  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
finasteride  (EXP)
flutamide  (EXP)
folic acid  (ISO)
fonofos  (ISO)
gentamycin  (EXP)
hydralazine  (ISO)
isotretinoin  (ISO)
ivermectin  (ISO)
maneb  (ISO)
mercury atom  (EXP)
mercury(0)  (EXP)
methyl methanesulfonate  (ISO)
N-nitrosodiethylamine  (EXP)
nefazodone  (EXP)
nimesulide  (EXP)
ozone  (EXP)
paclitaxel  (ISO)
paracetamol  (EXP)
paraquat  (ISO)
parathion  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
pinosylvin  (ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
terbufos  (ISO)
tetrachloroethene  (ISO)
thiram  (ISO)
titanium dioxide  (ISO)
trans-pinosylvin  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. 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.
2. 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.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Comprehensive gene review and curation RGD comprehensive gene curation
7. Information Derived from GenBank Report RGD, Sept. 2003
8. Human deafness dystonia syndrome is caused by a defect in assembly of the DDP1/TIMM8a-TIMM13 complex. Roesch K, etal., Hum Mol Genet. 2002 Mar 1;11(5):477-86.
Additional References at PubMed
PMID:10611480   PMID:14651853   PMID:18614015   PMID:24746669  


Genomics

Comparative Map Data
Timm13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr879,459,490 - 9,460,849 (+)NCBIGRCr8
mRatBN7.278,809,069 - 8,810,172 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl78,809,058 - 8,809,910 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx711,692,982 - 11,694,085 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0713,568,490 - 13,569,593 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0711,435,013 - 11,436,116 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0711,677,340 - 11,678,443 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl711,677,340 - 11,678,442 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0711,844,860 - 11,845,963 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4710,319,959 - 10,321,062 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera76,993,416 - 6,994,519 (+)NCBICelera
Cytogenetic Map7q11NCBI
TIMM13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38192,425,625 - 2,427,586 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl192,425,625 - 2,427,586 (-)EnsemblGRCh38hg38GRCh38
GRCh37192,425,623 - 2,427,584 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36192,376,622 - 2,378,875 (-)NCBINCBI36Build 36hg18NCBI36
Build 34192,376,621 - 2,378,875NCBI
Celera192,363,114 - 2,365,366 (-)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef192,197,673 - 2,199,965 (-)NCBIHuRef
CHM1_1192,425,121 - 2,427,413 (-)NCBICHM1_1
T2T-CHM13v2.0192,401,416 - 2,403,377 (-)NCBIT2T-CHM13v2.0
Timm13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391080,735,284 - 80,736,803 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1080,735,284 - 80,736,803 (-)EnsemblGRCm39 Ensembl
GRCm381080,899,450 - 80,900,969 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1080,899,450 - 80,900,969 (-)EnsemblGRCm38mm10GRCm38
MGSCv371080,362,195 - 80,363,714 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361080,302,579 - 80,303,895 (-)NCBIMGSCv36mm8
Celera1081,918,271 - 81,919,790 (-)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.72NCBI
Timm13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554955,781,024 - 5,782,300 (+)NCBIChiLan1.0ChiLan1.0
TIMM13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2206,810,701 - 6,813,072 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1196,039,965 - 6,042,251 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0191,438,221 - 1,440,190 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1192,404,688 - 2,406,207 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl192,404,691 - 2,406,207 (-)Ensemblpanpan1.1panPan2
TIMM13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha2056,461,360 - 56,462,270 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02057,398,720 - 57,399,648 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2057,376,730 - 57,399,644 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12056,450,957 - 56,451,867 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02056,936,154 - 56,937,077 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02057,136,403 - 57,137,321 (+)NCBIUU_Cfam_GSD_1.0
Timm13
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118216,388,559 - 216,389,574 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365881,445,214 - 1,446,239 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365881,445,209 - 1,446,223 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TIMM13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl276,146,867 - 76,155,729 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1276,146,946 - 76,148,163 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2276,698,404 - 76,699,633 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TIMM13
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.162,204,751 - 2,207,044 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl62,206,089 - 2,206,673 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660816,453,025 - 6,455,316 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Timm13
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248286,529,727 - 6,530,916 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248286,529,710 - 6,530,910 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Timm13
2 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:64
Count of miRNA genes:54
Interacting mature miRNAs:59
Transcripts:ENSRNOT00000026648
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
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)766427026029351Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7532901950329019Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
10755438Coatc9Coat color QTL 90coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7352928048529280Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7131962314Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7757398552573985Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
10755440Coatc10Coat color QTL 100coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7749649952496499Rat
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7127829089Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7131962314Rat

Markers in Region
RH127420  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.278,809,725 - 8,809,911 (+)MAPPERmRatBN7.2
Rnor_6.0711,677,997 - 11,678,182NCBIRnor6.0
Rnor_5.0711,845,517 - 11,845,702UniSTSRnor5.0
RGSC_v3.4710,320,616 - 10,320,801UniSTSRGSC3.4
Celera76,994,073 - 6,994,258UniSTS
RH 3.4 Map72.0UniSTS
Cytogenetic Map7q11UniSTS
RH140520  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.278,808,435 - 8,808,575 (+)MAPPERmRatBN7.2
Rnor_6.0711,676,707 - 11,676,846NCBIRnor6.0
Rnor_5.0711,844,227 - 11,844,366UniSTSRnor5.0
RGSC_v3.4710,319,326 - 10,319,465UniSTSRGSC3.4
Celera76,992,783 - 6,992,922UniSTS
Cytogenetic Map7q11UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000026648   ⟹   ENSRNOP00000026648
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl78,809,058 - 8,809,910 (-)Ensembl
Rnor_6.0 Ensembl711,677,340 - 11,678,442 (+)Ensembl
RefSeq Acc Id: NM_145781   ⟹   NP_665724
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr879,459,746 - 9,460,849 (+)NCBI
mRatBN7.278,809,069 - 8,810,172 (+)NCBI
Rnor_6.0711,677,340 - 11,678,443 (+)NCBI
Rnor_5.0711,844,860 - 11,845,963 (+)NCBI
RGSC_v3.4710,319,959 - 10,321,062 (+)RGD
Celera76,993,416 - 6,994,519 (+)RGD
Sequence:
RefSeq Acc Id: XM_063263024   ⟹   XP_063119094
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr879,459,490 - 9,460,604 (+)NCBI
Protein Sequences
Protein RefSeqs NP_665724 (Get FASTA)   NCBI Sequence Viewer  
  XP_063119094 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAD39952 (Get FASTA)   NCBI Sequence Viewer  
  EDL89211 (Get FASTA)   NCBI Sequence Viewer  
  P62076 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_665724   ⟸   NM_145781
- UniProtKB: P62076 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSRNOP00000026648   ⟸   ENSRNOT00000026648
RefSeq Acc Id: XP_063119094   ⟸   XM_063263024
- Peptide Label: isoform X1
- UniProtKB: P62076 (UniProtKB/Swiss-Prot)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P62076-F1-model_v2 AlphaFold P62076 1-95 view protein structure

Transcriptome

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

Promoters
RGD ID:13694998
Promoter ID:EPDNEW_R5522
Type:initiation region
Name:Timm13_1
Description:translocase of inner mitochondrial membrane 13
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_6.0711,677,322 - 11,677,382EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:628845 AgrOrtholog
BioCyc Gene G2FUF-34978 BioCyc
Ensembl Genes ENSRNOG00000019682 Ensembl
Gene3D-CATH 1.10.287.810 UniProtKB/Swiss-Prot
InterPro Tim10-like UniProtKB/Swiss-Prot
  Tim10-like_dom_sf UniProtKB/Swiss-Prot
KEGG Report rno:252928 UniProtKB/Swiss-Prot
NCBI Gene 252928 ENTREZGENE
Pfam zf-Tim10_DDP UniProtKB/Swiss-Prot
PhenoGen Timm13 PhenoGen
RatGTEx ENSRNOG00000019682 RatGTEx
Superfamily-SCOP SSF144122 UniProtKB/Swiss-Prot
UniProt A6K8E1_RAT UniProtKB/TrEMBL
  P62076 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q9UHL8 UniProtKB/Swiss-Prot
  Q9WTL1 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-08 Timm13  translocase of inner mitochondrial membrane 13  Timm13  translocase of inner mitochondrial membrane 13 homolog (yeast)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-12-14 Timm13  translocase of inner mitochondrial membrane 13 homolog (yeast)  Sirt6  sirtuin silent mating type information regulation 2 homolog 6 (S. cerevisiae)  Symbol and Name updated 1299863 APPROVED
2003-02-27 Sirt6  sirtuin silent mating type information regulation 2 homolog 6 (S. cerevisiae)      Symbol and Name status set to provisional 70820 PROVISIONAL