Dtd2 (D-aminoacyl-tRNA deacylase 2) - Rat Genome Database

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Gene: Dtd2 (D-aminoacyl-tRNA deacylase 2) Rattus norvegicus
Analyze
Symbol: Dtd2
Name: D-aminoacyl-tRNA deacylase 2
RGD ID: 1309138
Description: Predicted to enable Ala-tRNA(Thr) hydrolase activity and D-tyrosyl-tRNA(Tyr) deacylase activity. Predicted to be involved in aminoacyl-tRNA metabolism involved in translational fidelity. Predicted to be active in cytoplasm. Orthologous to human DTD2 (D-aminoacyl-tRNA deacylase 2); INTERACTS WITH (+)-schisandrin B; bisphenol A; flutamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: D-tyrosyl-tRNA deacylase 2; D-tyrosyl-tRNA deacylase 2 (putative); hypothetical protein LOC366619; LOC366619; probable D-tyrosyl-tRNA(Tyr) deacylase 2; RGD1309138; similar to hypothetical protein MGC9912; uncharacterized protein LOC366619
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8675,185,496 - 75,191,774 (-)NCBIGRCr8
mRatBN7.2669,450,146 - 69,456,430 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl669,449,614 - 69,456,427 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx669,875,365 - 69,880,971 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0670,182,004 - 70,187,610 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0669,621,529 - 69,627,135 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0672,781,229 - 72,786,835 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl672,780,543 - 72,786,830 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0682,343,041 - 82,348,647 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4672,153,048 - 72,158,654 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1672,154,945 - 72,161,761 (-)NCBI
Celera668,326,582 - 68,332,188 (-)NCBICelera
Cytogenetic Map6q23NCBI
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
cytoplasm  (IBA)

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:29410408  


Genomics

Comparative Map Data
Dtd2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8675,185,496 - 75,191,774 (-)NCBIGRCr8
mRatBN7.2669,450,146 - 69,456,430 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl669,449,614 - 69,456,427 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx669,875,365 - 69,880,971 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0670,182,004 - 70,187,610 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0669,621,529 - 69,627,135 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0672,781,229 - 72,786,835 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl672,780,543 - 72,786,830 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0682,343,041 - 82,348,647 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4672,153,048 - 72,158,654 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1672,154,945 - 72,161,761 (-)NCBI
Celera668,326,582 - 68,332,188 (-)NCBICelera
Cytogenetic Map6q23NCBI
DTD2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381431,446,036 - 31,457,506 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1431,446,036 - 31,457,506 (-)EnsemblGRCh38hg38GRCh38
GRCh371431,915,242 - 31,926,712 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361430,984,993 - 30,996,431 (-)NCBINCBI36Build 36hg18NCBI36
Build 341430,985,947 - 30,996,382NCBI
Celera1411,780,548 - 11,791,986 (-)NCBICelera
Cytogenetic Map14q12NCBI
HuRef1412,032,751 - 12,044,192 (-)NCBIHuRef
CHM1_11431,914,338 - 31,925,783 (-)NCBICHM1_1
T2T-CHM13v2.01425,643,623 - 25,655,096 (-)NCBIT2T-CHM13v2.0
Dtd2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391252,035,089 - 52,053,290 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1252,035,095 - 52,053,284 (-)EnsemblGRCm39 Ensembl
GRCm381251,988,306 - 52,006,507 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1251,988,312 - 52,006,501 (-)EnsemblGRCm38mm10GRCm38
MGSCv371253,098,494 - 53,107,488 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361252,919,127 - 52,928,121 (-)NCBIMGSCv36mm8
MGSCv361246,437,199 - 46,446,197 (-)NCBIMGSCv36mm8
Celera1253,303,768 - 53,313,203 (-)NCBICelera
Cytogenetic Map12C1NCBI
cM Map1222.11NCBI
Dtd2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540929,151,779 - 29,160,734 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540929,151,779 - 29,160,734 (+)NCBIChiLan1.0ChiLan1.0
DTD2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21532,775,279 - 32,786,789 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11431,992,742 - 32,003,297 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01412,222,744 - 12,234,227 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11430,419,810 - 30,431,296 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1430,419,810 - 30,431,296 (-)Ensemblpanpan1.1panPan2
DTD2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1810,694,999 - 10,706,155 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl810,696,505 - 10,706,060 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha810,557,501 - 10,568,679 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0810,797,336 - 10,808,515 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl810,798,842 - 10,808,451 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1810,479,232 - 10,490,425 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0810,555,980 - 10,567,414 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0810,841,065 - 10,852,122 (-)NCBIUU_Cfam_GSD_1.0
Dtd2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864042,542,103 - 42,551,302 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049364946,047,857 - 6,057,185 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DTD2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl768,106,224 - 68,116,986 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1768,105,268 - 68,118,220 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2772,987,051 - 72,997,913 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Dtd2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624820859,511 - 868,653 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624820859,554 - 870,951 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Dtd2
27 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:327
Count of miRNA genes:193
Interacting mature miRNAs:224
Transcripts:ENSRNOT00000009020
Prediction methods:Microtar, 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
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)610894415110548006Rat
4889848Pur25Proteinuria QTL 25140.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)65672856290198260Rat
6893332Cm74Cardiac mass QTL 740.40.64heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)657730540104085867Rat
6893340Cm77Cardiac mass QTL 770.260.57heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)63330954981132889Rat
731173Uae22Urinary albumin excretion QTL 2210.1urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
9590290Uminl2Urine mineral level QTL 23.960.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)63878398983783989Rat
9590306Scort18Serum corticosterone level QTL 182.880.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)63878398983783989Rat
634307Bp141Blood pressure QTL 1414arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)63523041780230417Rat
634330Pia16Pristane induced arthritis QTL 163.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)645790088104200226Rat
1300143Rf14Renal function QTL 142.92renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)63443413777102317Rat
9590140Scort4Serum corticosterone level QTL 414.490.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)63878398983783989Rat
1331779Rf38Renal function QTL 382.876kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)63207442872227641Rat
1354632Scl29Serum cholesterol level QTL 293.74blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)63509870971636405Rat
1354664Slep2Serum leptin concentration QTL 24.49blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)61653614071636405Rat
1558641Cm47Cardiac mass QTL 472.90.001heart mass (VT:0007028)heart wet weight (CMO:0000069)657730540104085867Rat
1641904Alcrsp4Alcohol response QTL 4response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)667262953112262953Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)615107216107351382Rat
1578665Bss16Bone structure and strength QTL 164.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)61173566972593685Rat
1578668Bmd14Bone mineral density QTL 143.8femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)61173566972593685Rat
70176Mcsm1Mammary carcinoma susceptibility modifier QTL 1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)658632962103632962Rat
2290393Uae37Urinary albumin excretion QTL 370.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
2293088Iddm28Insulin dependent diabetes mellitus QTL 285.21blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)66304056271636266Rat
2293839Kiddil2Kidney dilation QTL 24.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62086642281133036Rat
2293841Kiddil4Kidney dilation QTL 44.4kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62086642281133036Rat
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6172227641Rat
12801471Schws9Schwannoma susceptibility QTL 9nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)661747639106747639Rat

Markers in Region
RH128276  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2669,450,371 - 69,450,591 (+)MAPPERmRatBN7.2
Rnor_6.0672,780,777 - 72,780,996NCBIRnor6.0
Rnor_5.0682,342,589 - 82,342,808UniSTSRnor5.0
RGSC_v3.4672,152,596 - 72,152,815UniSTSRGSC3.4
Celera668,326,130 - 68,326,349UniSTS
RH 3.4 Map6517.0UniSTS
Cytogenetic Map6q23UniSTS


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 12 49 40 6 40 66 31 34 6
Low 31 8 1 13 1 8 11 8 4 7 5 8
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000009020   ⟹   ENSRNOP00000009020
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl669,449,614 - 69,456,427 (-)Ensembl
Rnor_6.0 Ensembl672,780,543 - 72,786,830 (-)Ensembl
RefSeq Acc Id: NM_001108981   ⟹   NP_001102451
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8675,186,168 - 75,191,774 (-)NCBI
mRatBN7.2669,450,824 - 69,456,430 (-)NCBI
Rnor_6.0672,781,229 - 72,786,835 (-)NCBI
Rnor_5.0682,343,041 - 82,348,647 (-)NCBI
RGSC_v3.4672,153,048 - 72,158,654 (-)RGD
Celera668,326,582 - 68,332,188 (-)RGD
Sequence:
RefSeq Acc Id: XM_039112630   ⟹   XP_038968558
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8675,185,496 - 75,191,617 (-)NCBI
mRatBN7.2669,450,146 - 69,456,280 (-)NCBI
RefSeq Acc Id: XM_039112631   ⟹   XP_038968559
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8675,185,496 - 75,191,405 (-)NCBI
mRatBN7.2669,450,146 - 69,456,008 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001102451 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968558 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968559 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI59435 (Get FASTA)   NCBI Sequence Viewer  
  EDM03386 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000009020
  ENSRNOP00000009020.3
RefSeq Acc Id: NP_001102451   ⟸   NM_001108981
- UniProtKB: B0K034 (UniProtKB/TrEMBL),   A6HBI1 (UniProtKB/TrEMBL),   F7FIM5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000009020   ⟸   ENSRNOT00000009020
RefSeq Acc Id: XP_038968558   ⟸   XM_039112630
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038968559   ⟸   XM_039112631
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B0K034-F1-model_v2 AlphaFold B0K034 1-168 view protein structure

Transcriptome

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

Promoters
RGD ID:13694591
Promoter ID:EPDNEW_R5115
Type:single initiation site
Name:Dtd2_1
Description:D-tyrosyl-tRNA deacylase 2
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_6.0672,786,832 - 72,786,892EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309138 AgrOrtholog
BioCyc Gene G2FUF-37579 BioCyc
Ensembl Genes ENSRNOG00000006727 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000009020 ENTREZGENE
  ENSRNOT00000009020.4 UniProtKB/TrEMBL
Gene3D-CATH 3.50.80.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:9100851 IMAGE-MGC_LOAD
InterPro DTD-like_dom UniProtKB/TrEMBL
  DTyrtRNA_deacyls UniProtKB/TrEMBL
KEGG Report rno:366619 UniProtKB/TrEMBL
MGC_CLONE MGC:188767 IMAGE-MGC_LOAD
NCBI Gene 366619 ENTREZGENE
PANTHER D-AMINOACYL-TRNA DEACYLASE 2 UniProtKB/TrEMBL
  DTyrtRNA_deacyls UniProtKB/TrEMBL
Pfam Tyr_Deacylase UniProtKB/TrEMBL
PhenoGen Dtd2 PhenoGen
RatGTEx ENSRNOG00000006727 RatGTEx
Superfamily-SCOP DTyrtRNA_deacyls UniProtKB/TrEMBL
UniProt A6HBI1 ENTREZGENE, UniProtKB/TrEMBL
  B0K034 ENTREZGENE
  F7FIM5 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary B0K034 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-04-16 Dtd2  D-aminoacyl-tRNA deacylase 2  Dtd2  D-tyrosyl-tRNA deacylase 2 (putative)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2019-01-04 Dtd2  D-tyrosyl-tRNA deacylase 2 (putative)  Dtd2  D-tyrosyl-tRNA deacylase 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-11-19 Dtd2  D-tyrosyl-tRNA deacylase 2  Dtd2  D-tyrosyl-tRNA deacylase 2 (putative)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-10-10 Dtd2  D-tyrosyl-tRNA deacylase 2 (putative)  RGD1309138  similar to hypothetical protein MGC9912  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1309138  similar to hypothetical protein MGC9912   RGD1309138_predicted  similar to hypothetical protein MGC9912 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1309138_predicted  similar to hypothetical protein MGC9912 (predicted)  LOC366619_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC366619_predicted  similar to hypothetical protein MGC9912 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL