Timmdc1 (translocase of inner mitochondrial membrane domain containing 1) - Rat Genome Database

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Gene: Timmdc1 (translocase of inner mitochondrial membrane domain containing 1) Rattus norvegicus
Analyze
Symbol: Timmdc1
Name: translocase of inner mitochondrial membrane domain containing 1
RGD ID: 1359380
Description: Predicted to be located in nucleoplasm. Predicted to be active in mitochondrion. Human ortholog(s) of this gene implicated in nuclear type mitochondrial complex I deficiency 31. Orthologous to human TIMMDC1 (translocase of inner mitochondrial membrane domain containing 1); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: complex I assembly factor TIMMDC1, mitochondrial; MGC94152; RGD1359380; similar to hypothetical protein MGC7537; TIMM domain containing-protein 1; translocase of inner mitochondrial membrane domain-containing protein 1; transmembrane protein C3orf1 homolog; transmembrane protein C3orf1 homolog-like
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
GRCr81175,734,554 - 75,759,026 (+)NCBIGRCr8
mRatBN7.21162,228,990 - 62,259,389 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1162,229,058 - 62,254,699 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1171,041,555 - 71,066,027 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01163,703,812 - 63,728,284 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01162,754,861 - 62,779,091 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01164,790,801 - 64,815,484 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1164,790,801 - 64,815,477 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01167,288,390 - 67,318,871 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41164,007,362 - 64,031,773 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11164,064,950 - 64,089,363 (+)NCBI
Celera1161,731,626 - 61,755,761 (+)NCBICelera
Cytogenetic Map11q21NCBI
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
membrane  (IEA)
mitochondrial membrane  (IEA)
mitochondrion  (IBA,IEA,ISO)
nucleoplasm  (IEA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Identification and expression analysis of C3orf1, a novel human gene homologous to the Drosophila RP140-upstream gene. Escarceller M, etal., DNA Seq 2000;11(3-4):335-8.
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. 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. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:15489334   PMID:18614015  


Genomics

Comparative Map Data
Timmdc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81175,734,554 - 75,759,026 (+)NCBIGRCr8
mRatBN7.21162,228,990 - 62,259,389 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1162,229,058 - 62,254,699 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1171,041,555 - 71,066,027 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01163,703,812 - 63,728,284 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01162,754,861 - 62,779,091 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01164,790,801 - 64,815,484 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1164,790,801 - 64,815,477 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01167,288,390 - 67,318,871 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41164,007,362 - 64,031,773 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11164,064,950 - 64,089,363 (+)NCBI
Celera1161,731,626 - 61,755,761 (+)NCBICelera
Cytogenetic Map11q21NCBI
TIMMDC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383119,498,547 - 119,525,090 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3119,498,547 - 119,525,090 (+)EnsemblGRCh38hg38GRCh38
GRCh373119,217,394 - 119,243,937 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363120,700,058 - 120,725,818 (+)NCBINCBI36Build 36hg18NCBI36
Build 343120,700,068 - 120,725,825NCBI
Celera3117,625,927 - 117,651,681 (+)NCBICelera
Cytogenetic Map3q13.33NCBI
HuRef3116,593,055 - 116,618,818 (+)NCBIHuRef
CHM1_13119,180,849 - 119,206,611 (+)NCBICHM1_1
T2T-CHM13v2.03122,218,265 - 122,244,808 (+)NCBIT2T-CHM13v2.0
Timmdc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391638,318,205 - 38,343,075 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1638,318,709 - 38,343,025 (-)EnsemblGRCm39 Ensembl
GRCm381638,497,843 - 38,522,778 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1638,498,347 - 38,522,663 (-)EnsemblGRCm38mm10GRCm38
MGSCv371638,497,925 - 38,522,747 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361638,417,652 - 38,441,928 (-)NCBIMGSCv36mm8
Celera1638,908,448 - 38,933,313 (-)NCBICelera
Cytogenetic Map16B4NCBI
cM Map1626.86NCBI
Timmdc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542719,209,857 - 19,235,097 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542719,208,029 - 19,234,763 (+)NCBIChiLan1.0ChiLan1.0
TIMMDC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22117,476,044 - 117,501,619 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13117,480,812 - 117,506,397 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03116,621,164 - 116,646,776 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13123,533,675 - 123,559,348 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3123,533,675 - 123,559,348 (+)Ensemblpanpan1.1panPan2
TIMMDC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13323,153,988 - 23,175,412 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3323,154,225 - 23,175,083 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3323,184,452 - 23,205,650 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03323,392,642 - 23,413,722 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3323,392,646 - 23,440,205 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13323,194,897 - 23,216,183 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03323,230,493 - 23,251,755 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03323,799,928 - 23,821,209 (+)NCBIUU_Cfam_GSD_1.0
Timmdc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602131,069,078 - 131,089,169 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049365366,432,802 - 6,451,485 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TIMMDC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13140,730,495 - 140,758,607 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113140,728,559 - 140,758,698 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
TIMMDC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12261,306,440 - 61,331,639 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2261,306,764 - 61,331,882 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041104,994,069 - 105,018,878 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Timmdc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473128,658,065 - 28,680,252 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473128,657,663 - 28,680,448 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Timmdc1
156 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:46
Count of miRNA genes:42
Interacting mature miRNAs:45
Transcripts:ENSRNOT00000004023
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
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)115980279482566553Rat
70180BpQTLcluster10Blood pressure QTL cluster 103.19arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)113491804179918041Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
4889859Pur28Proteinuria QTL 2819.50.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)114545932375190161Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
10755497Bp388Blood pressure QTL 3882.76arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)111945620576331918Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112295940367959403Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116034659086241447Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113123913478851519Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)114094618882566702Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)114428575982566702Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112328045668280456Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115445753486241447Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112328045668280456Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)115513672982993457Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115635142486241447Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)115980279482566545Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat

Markers in Region
RH141128  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21162,253,246 - 62,253,426 (+)MAPPERmRatBN7.2
Rnor_6.01164,815,222 - 64,815,401NCBIRnor6.0
Rnor_5.01167,294,352 - 67,294,531UniSTSRnor5.0
RGSC_v3.41164,031,511 - 64,031,690UniSTSRGSC3.4
Celera1161,755,499 - 61,755,678UniSTS
RH 3.4 Map11500.9UniSTS
Cytogenetic Map11q21UniSTS


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: ENSRNOT00000004023   ⟹   ENSRNOP00000004023
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1162,229,058 - 62,254,699 (+)Ensembl
Rnor_6.0 Ensembl1164,790,801 - 64,815,477 (+)Ensembl
RefSeq Acc Id: NM_001007676   ⟹   NP_001007677
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81175,734,554 - 75,759,026 (+)NCBI
mRatBN7.21162,229,037 - 62,253,509 (+)NCBI
Rnor_6.01164,790,801 - 64,815,484 (+)NCBI
Rnor_5.01167,288,390 - 67,318,871 (-)NCBI
RGSC_v3.41164,007,362 - 64,031,773 (+)RGD
Celera1161,731,626 - 61,755,761 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001007677 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH79140 (Get FASTA)   NCBI Sequence Viewer  
  EDM11214 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000004023.4
  ENSRNOP00055022089
  ENSRNOP00060009842
  ENSRNOP00065025631
GenBank Protein Q6AY94 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001007677   ⟸   NM_001007676
- UniProtKB: Q6AY94 (UniProtKB/Swiss-Prot),   A6IR61 (UniProtKB/TrEMBL),   A0A8L2Q1B5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000004023   ⟸   ENSRNOT00000004023

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6AY94-F1-model_v2 AlphaFold Q6AY94 1-285 view protein structure

Transcriptome

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

Promoters
RGD ID:13698165
Promoter ID:EPDNEW_R8689
Type:initiation region
Name:Timmdc1_1
Description:translocase of inner mitochondrial membrane domain containing1
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_6.01164,790,798 - 64,790,858EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359380 AgrOrtholog
BioCyc Gene G2FUF-21276 BioCyc
Ensembl Genes ENSRNOG00000002999 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00055016217 UniProtKB/Swiss-Prot
  ENSRNOG00060007860 UniProtKB/Swiss-Prot
  ENSRNOG00065019106 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000004023.6 UniProtKB/TrEMBL
  ENSRNOT00055027511 UniProtKB/Swiss-Prot
  ENSRNOT00060012966 UniProtKB/Swiss-Prot
  ENSRNOT00065032117 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7127856 IMAGE-MGC_LOAD
KEGG Report rno:303922 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:94152 IMAGE-MGC_LOAD
NCBI Gene 303922 ENTREZGENE
PANTHER C3ORF1 PROTEIN-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  COMPLEX I ASSEMBLY FACTOR TIMMDC1, MITOCHONDRIAL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Tim17 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Timmdc1 PhenoGen
RatGTEx ENSRNOG00000002999 RatGTEx
  ENSRNOG00055016217 RatGTEx
  ENSRNOG00060007860 RatGTEx
  ENSRNOG00065019106 RatGTEx
UniProt A0A8L2Q1B5 ENTREZGENE, UniProtKB/TrEMBL
  A6IR61 ENTREZGENE, UniProtKB/TrEMBL
  Q6AY94 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-05-24 Timmdc1  translocase of inner mitochondrial membrane domain containing 1  LOC100360223  transmembrane protein C3orf1 homolog-like  Data merged from RGD:2322527 1643240 APPROVED
2011-08-01 Timmdc1  translocase of inner mitochondrial membrane domain containing 1  RGD1359380  similar to hypothetical protein MGC7537  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-06 LOC100360223  transmembrane protein C3orf1 homolog-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-30 RGD1359380  similar to hypothetical protein MGC7537  MGC94152    Symbol updated 1299863 APPROVED
2005-07-29 MGC94152  similar to hypothetical protein MGC7537      Symbol and Name status set to provisional 70820 PROVISIONAL