Tor4a (torsin family 4, member A) - Rat Genome Database

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Gene: Tor4a (torsin family 4, member A) Rattus norvegicus
Analyze
Symbol: Tor4a
Name: torsin family 4, member A
RGD ID: 1308019
Description: Predicted to enable ATP binding activity and ATP hydrolysis activity. Predicted to be located in cytoplasm; endomembrane system; and membrane. Predicted to be active in endoplasmic reticulum lumen and nuclear envelope. Orthologous to human TOR4A (torsin family 4 member A); INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC311795; LOC311795; RGD1308019; similar to hypothetical protein FLJ20245; torsin-4A; uncharacterized protein LOC311795
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8328,402,454 - 28,406,141 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl328,399,513 - 28,406,473 (-)EnsemblGRCr8
mRatBN7.238,004,292 - 8,007,979 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,002,023 - 8,008,042 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx311,109,043 - 11,112,730 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0319,695,272 - 19,698,959 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0317,885,115 - 17,888,802 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.032,407,857 - 2,411,544 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl32,407,857 - 2,411,544 (-)Ensemblrn6Rnor6.0
Rnor_5.032,389,140 - 2,392,827 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.433,353,628 - 3,357,315 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera32,831,136 - 2,834,823 (-)NCBICelera
RGSC_v3.133,354,996 - 3,356,434 (-)NCBI
Cytogenetic Map3p13NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1-naphthyl isothiocyanate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
2-palmitoylglycerol  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
alpha-Zearalanol  (EXP)
amitrole  (EXP)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
Butylbenzyl phthalate  (ISO)
cadmium dichloride  (EXP,ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (ISO)
diethyl phthalate  (ISO)
diisobutyl phthalate  (ISO)
diisononyl phthalate  (ISO)
dimethyl sulfoxide  (ISO)
dioxygen  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
endosulfan  (EXP)
gentamycin  (EXP)
hydroquinone O-beta-D-glucopyranoside  (ISO)
indometacin  (ISO)
iron dichloride  (ISO)
ivermectin  (ISO)
kojic acid  (ISO)
lead diacetate  (ISO)
lead(0)  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
methylparaben  (ISO)
N-nitrosodimethylamine  (EXP)
nitrates  (ISO)
okadaic acid  (ISO)
ozone  (ISO)
paracetamol  (EXP)
perfluorodecanoic acid  (ISO)
perfluorononanoic acid  (ISO)
phenobarbital  (EXP)
propylparaben  (ISO)
prothioconazole  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sulfadimethoxine  (EXP)
thioacetamide  (EXP)
thiram  (ISO)
triclosan  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Tor4a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8328,402,454 - 28,406,141 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl328,399,513 - 28,406,473 (-)EnsemblGRCr8
mRatBN7.238,004,292 - 8,007,979 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,002,023 - 8,008,042 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx311,109,043 - 11,112,730 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0319,695,272 - 19,698,959 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0317,885,115 - 17,888,802 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.032,407,857 - 2,411,544 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl32,407,857 - 2,411,544 (-)Ensemblrn6Rnor6.0
Rnor_5.032,389,140 - 2,392,827 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.433,353,628 - 3,357,315 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera32,831,136 - 2,834,823 (-)NCBICelera
RGSC_v3.133,354,996 - 3,356,434 (-)NCBI
Cytogenetic Map3p13NCBI
TOR4A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389137,277,726 - 137,282,641 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9137,274,854 - 137,282,641 (+)Ensemblhg38GRCh38
GRCh379140,172,178 - 140,177,093 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369139,292,101 - 139,296,914 (+)NCBIBuild 36Build 36hg18NCBI36
Celera9110,688,979 - 110,692,947 (+)NCBICelera
Cytogenetic Map9q34.3NCBI
HuRef9109,631,637 - 109,636,404 (+)NCBIHuRef
CHM1_19140,320,857 - 140,325,670 (+)NCBICHM1_1
T2T-CHM13v2.09149,515,771 - 149,520,686 (+)NCBIT2T-CHM13v2.0
Tor4a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39225,082,732 - 25,086,825 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl225,082,978 - 25,086,898 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38225,192,720 - 25,196,813 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl225,192,966 - 25,196,886 (-)Ensemblmm10GRCm38
MGSCv37225,048,240 - 25,052,333 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36225,014,729 - 25,018,622 (-)NCBIMGSCv36mm8
Celera224,920,489 - 24,924,582 (-)NCBICelera
Cytogenetic Map2A3NCBI
cM Map217.06NCBI
Tor4a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555135,264,066 - 5,265,386 (+)Ensembl
ChiLan1.0NW_0049555135,263,299 - 5,265,622 (+)NCBIChiLan1.0ChiLan1.0
TOR4A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2112,116,706 - 2,121,932 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan192,119,039 - 2,124,266 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v09108,337,814 - 108,342,723 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19137,307,611 - 137,311,577 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9137,307,626 - 137,310,283 (+)EnsemblpanPan2panpan1.1
TOR4A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1948,405,017 - 48,411,583 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha947,591,577 - 47,597,042 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0949,266,440 - 49,271,907 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
UMICH_Zoey_3.1948,042,857 - 48,048,329 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0948,341,602 - 48,347,076 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0948,388,507 - 48,393,992 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Tor4a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947202,651,233 - 202,655,728 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936669721,349 - 722,620 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936669718,872 - 723,541 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TOR4A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa10.21314,112,192 - 314,114,924 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TOR4A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.112908,956 - 911,198 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl12908,975 - 910,246 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660584,395,923 - 4,401,084 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tor4a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624760686,768 - 690,397 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624760686,754 - 692,557 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Tor4a
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1511,990,014 - 11,992,831 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Tor4a
14 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:383
Count of miRNA genes:212
Interacting mature miRNAs:247
Transcripts:ENSRNOT00000012406
Prediction methods:Microtar, Miranda
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1558647Cm46Cardiac mass QTL 465.40.0000055heart mass (VT:0007028)heart wet weight (CMO:0000069)32267715050766390Rat
6893355Bw101Body weight QTL 1010.40.38body mass (VT:0001259)body weight (CMO:0000012)3576639050766390Rat
10450811Scl73Serum cholesterol level QTL 734.70.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)3290432947904329Rat
2292615Ept17Estrogen-induced pituitary tumorigenesis QTL 176.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3655634751556347Rat
10450808Scl72Serum cholesterol level QTL 724.40.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)3290432947904329Rat
10450806Scl71Serum cholesterol level QTL 715.80.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)3290432947904329Rat
1558654Bw56Body weight QTL 564.50.0000171body mass (VT:0001259)body weight (CMO:0000012)3576639050766390Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)3612543751125437Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3136721849Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31141509147Rat
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3655634751556347Rat
1558657Cm43Cardiac mass QTL 436.63e-08heart mass (VT:0007028)heart wet weight (CMO:0000069)32267715050766390Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)31527234860272348Rat
6893363Bw105Body weight QTL 1052.60.0036body mass (VT:0001259)body weight (CMO:0000012)3576639050766390Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)35675975141509147Rat
1358185Ept6Estrogen-induced pituitary tumorigenesis QTL 66.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3655634751556347Rat

Markers in Region
RH133027  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.238,004,503 - 8,004,697 (+)MAPPERmRatBN7.2
Rnor_6.032,408,069 - 2,408,262NCBIRnor6.0
Rnor_5.032,389,352 - 2,389,545UniSTSRnor5.0
RGSC_v3.433,353,840 - 3,354,033UniSTSRGSC3.4
Celera32,831,348 - 2,831,541UniSTS
Cytogenetic Map3p13UniSTS


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 163 91 90 59 92 59 6 356 192 11 142 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000012406   ⟹   ENSRNOP00000012406
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl328,399,513 - 28,406,473 (-)Ensembl
mRatBN7.2 Ensembl38,002,023 - 8,008,042 (-)Ensembl
Rnor_6.0 Ensembl32,407,857 - 2,411,544 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000141739   ⟹   ENSRNOP00000109104
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl328,400,212 - 28,406,250 (-)Ensembl
RefSeq Acc Id: NM_001107816   ⟹   NP_001101286
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8328,402,454 - 28,406,141 (-)NCBI
mRatBN7.238,004,292 - 8,007,979 (-)NCBI
Rnor_6.032,407,857 - 2,411,544 (-)NCBI
Rnor_5.032,389,140 - 2,392,827 (-)NCBI
RGSC_v3.433,353,628 - 3,357,315 (-)RGD
Celera32,831,136 - 2,834,823 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001101286 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL93636 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000012406
  ENSRNOP00000012406.3
  ENSRNOP00000109104.1
RefSeq Acc Id: NP_001101286   ⟸   NM_001107816
- UniProtKB: D3ZG57 (UniProtKB/TrEMBL),   A6JT11 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000012406   ⟸   ENSRNOT00000012406
Ensembl Acc Id: ENSRNOP00000109104   ⟸   ENSRNOT00000141739
Protein Domains
AAA+ ATPase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZG57-F1-model_v2 AlphaFold D3ZG57 1-434 view protein structure

Transcriptome

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

Promoters
RGD ID:13691859
Promoter ID:EPDNEW_R2383
Type:single initiation site
Name:Tor4a_1
Description:torsin family 4, member A
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_6.032,411,530 - 2,411,590EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308019 AgrOrtholog
BioCyc Gene G2FUF-50482 BioCyc
Ensembl Genes ENSRNOG00000009369 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000012406 ENTREZGENE
  ENSRNOT00000012406.5 UniProtKB/TrEMBL
  ENSRNOT00000141739.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/TrEMBL
InterPro ATPase_AAA+_core UniProtKB/TrEMBL
  Chaprnin_clpA/B UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  Torsin UniProtKB/TrEMBL
KEGG Report rno:311795 UniProtKB/TrEMBL
NCBI Gene 311795 ENTREZGENE
PANTHER PTHR10760:SF1 UniProtKB/TrEMBL
  Torsin UniProtKB/TrEMBL
Pfam Torsin UniProtKB/TrEMBL
PhenoGen Tor4a PhenoGen
PRINTS CLPPROTEASEA UniProtKB/TrEMBL
RatGTEx ENSRNOG00000009369 RatGTEx
SMART AAA UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt A6JT11 ENTREZGENE, UniProtKB/TrEMBL
  D3ZG57 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-10-10 Tor4a  torsin family 4, member A  RGD1308019  similar to hypothetical protein FLJ20245  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1308019  similar to hypothetical protein FLJ20245   RGD1308019_predicted  similar to hypothetical protein FLJ20245 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1308019_predicted  similar to hypothetical protein FLJ20245 (predicted)  LOC311795_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC311795_predicted  similar to hypothetical protein FLJ20245 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL