Tgds (TDP-glucose 4,6-dehydratase) - Rat Genome Database

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Gene: Tgds (TDP-glucose 4,6-dehydratase) Rattus norvegicus
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Symbol: Tgds
Name: TDP-glucose 4,6-dehydratase
RGD ID: 1306544
Description: Predicted to enable dTDP-glucose 4,6-dehydratase activity. Predicted to be involved in nucleotide-sugar metabolic process. Human ortholog(s) of this gene implicated in Catel Manzke syndrome. Orthologous to human TGDS (TDP-glucose 4,6-dehydratase); INTERACTS WITH 6-propyl-2-thiouracil; amitrole; azoxystrobin.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: dTDP-D-glucose 4,6-dehydratase; LOC306164
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
GRCr815101,581,765 - 101,602,779 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl15101,582,227 - 101,602,718 (-)EnsemblGRCr8
mRatBN7.21595,175,064 - 95,195,555 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1595,174,608 - 95,195,554 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1599,079,895 - 99,100,420 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.015100,211,853 - 100,232,378 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01597,140,542 - 97,161,068 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.015103,319,268 - 103,340,239 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl15103,319,268 - 103,340,240 (-)Ensemblrn6Rnor6.0
Rnor_5.015106,757,794 - 106,778,765 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.415102,906,505 - 102,927,476 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1594,026,655 - 94,047,623 (-)NCBICelera
RGSC_v3.115102,886,389 - 102,947,401 (-)NCBI
Cytogenetic Map15q24NCBI
JBrowse:




Disease 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. 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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932  


Genomics

Comparative Map Data
Tgds
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr815101,581,765 - 101,602,779 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl15101,582,227 - 101,602,718 (-)EnsemblGRCr8
mRatBN7.21595,175,064 - 95,195,555 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1595,174,608 - 95,195,554 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1599,079,895 - 99,100,420 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.015100,211,853 - 100,232,378 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01597,140,542 - 97,161,068 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.015103,319,268 - 103,340,239 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl15103,319,268 - 103,340,240 (-)Ensemblrn6Rnor6.0
Rnor_5.015106,757,794 - 106,778,765 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.415102,906,505 - 102,927,476 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1594,026,655 - 94,047,623 (-)NCBICelera
RGSC_v3.115102,886,389 - 102,947,401 (-)NCBI
Cytogenetic Map15q24NCBI
TGDS
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381394,574,054 - 94,596,273 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1394,574,054 - 94,596,276 (-)Ensemblhg38GRCh38
GRCh371395,226,308 - 95,248,406 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361394,024,309 - 94,046,512 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341394,024,276 - 94,046,484NCBI
Celera1376,074,266 - 76,096,482 (-)NCBICelera
Cytogenetic Map13q32.1NCBI
HuRef1375,823,580 - 75,845,722 (-)NCBIHuRef
CHM1_11395,195,749 - 95,217,972 (-)NCBICHM1_1
T2T-CHM13v2.01393,777,561 - 93,799,780 (-)NCBIT2T-CHM13v2.0
Tgds
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3914118,349,323 - 118,370,177 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl14118,349,323 - 118,370,167 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm3814118,111,911 - 118,132,765 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl14118,111,911 - 118,132,755 (-)Ensemblmm10GRCm38
MGSCv3714118,511,133 - 118,531,987 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv3614116,994,822 - 117,015,076 (-)NCBIMGSCv36mm8
Celera14116,666,336 - 116,687,188 (-)NCBICelera
Cytogenetic Map14E4NCBI
cM Map1461.74NCBI
Tgds
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540415,279,866 - 15,298,295 (+)Ensembl
ChiLan1.0NW_00495540415,279,956 - 15,298,295 (+)NCBIChiLan1.0ChiLan1.0
TGDS
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21496,103,255 - 96,125,454 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11394,771,940 - 94,794,266 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01375,747,686 - 75,770,010 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11394,903,511 - 94,925,637 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1394,903,511 - 94,925,637 (-)EnsemblpanPan2panpan1.1
TGDS
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12245,384,119 - 45,400,128 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2245,384,412 - 45,400,314 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2245,170,937 - 45,186,953 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02245,814,910 - 45,831,319 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2245,814,910 - 45,831,337 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12245,468,436 - 45,484,465 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02245,509,305 - 45,525,339 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02245,518,896 - 45,534,916 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Tgds
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945180,932,345 - 180,958,550 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647214,993,710 - 15,014,408 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493647214,993,579 - 15,016,270 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TGDS
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1163,695,638 - 63,716,568 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11163,695,612 - 63,716,614 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21169,863,218 - 69,884,205 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TGDS
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1373,403,520 - 73,424,985 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl373,400,485 - 73,424,892 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604629,788,007 - 29,814,614 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tgds
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248791,366,151 - 1,384,601 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248791,365,464 - 1,384,726 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Tgds
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1127,806,710 - 7,827,250 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Tgds
97 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:124
Count of miRNA genes:97
Interacting mature miRNAs:107
Transcripts:ENSRNOT00000067309
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1544806773104695021Rat
1576315Schws6Schwannoma susceptibility QTL 60.0069nervous system integrity trait (VT:0010566)post-insult time of death (CMO:0002005)1560213984105213984Rat
1549844Bss7Bone structure and strength QTL 76.4femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1582194914108192169Rat
2300326Plaw1Placental weight QTL 1150.005placenta mass (VT:0004257)placenta wet weight (CMO:0002088)1574735564106469153Rat
1300118Bp190Blood pressure QTL 1902.94arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)1588677086104695021Rat
1358354Srcrt5Stress Responsive Cort QTL 53.38blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1582503470108192169Rat
70155Gcs1Gastric cancer susceptibility QTL13.8stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)1582714037106778197Rat
1300120Kidm7Kidney mass QTL 73.55kidney mass (VT:0002707)left kidney wet weight to body weight ratio (CMO:0001954)1588677086104695021Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1525285835104695021Rat
631655Bp126Blood pressure QTL 1264arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1564571127108192169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1525285835104695021Rat
7411646Foco21Food consumption QTL 2123.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1584278281108192169Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)1561710951106710951Rat
1581519Cm59Cardiac mass QTL 592.80.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)1595260808102247606Rat
1641889Colcr6Colorectal carcinoma resistance QTL 62.90.0126intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)1583700787108192169Rat
2317050Aia24Adjuvant induced arthritis QTL 242.06joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1559257087104257087Rat
2313080Bss65Bone structure and strength QTL 653.90.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)1567399137108192169Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)1525285835104695021Rat
2317055Aia10Adjuvant induced arthritis QTL 103.41joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1582194914108192169Rat


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 67 164 91 90 59 92 59 6 356 192 10 143 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000067309   ⟹   ENSRNOP00000062674
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl15103,319,268 - 103,340,239 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000088909   ⟹   ENSRNOP00000071162
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl15101,582,227 - 101,602,718 (-)Ensembl
mRatBN7.2 Ensembl1595,174,608 - 95,195,554 (-)Ensembl
Rnor_6.0 Ensembl15103,319,279 - 103,340,240 (-)Ensembl
RefSeq Acc Id: NM_001394729   ⟹   NP_001381658
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr815101,582,227 - 101,602,718 (-)NCBI
mRatBN7.21595,175,064 - 95,195,555 (-)NCBI
RefSeq Acc Id: XM_063274347   ⟹   XP_063130417
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr815101,583,635 - 101,602,779 (-)NCBI
RefSeq Acc Id: XM_063274348   ⟹   XP_063130418
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr815101,581,765 - 101,591,859 (-)NCBI
RefSeq Acc Id: XR_010057831
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr815101,583,606 - 101,602,777 (-)NCBI
RefSeq Acc Id: XR_010057832
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr815101,583,606 - 101,602,778 (-)NCBI
Ensembl Acc Id: ENSRNOP00000062674   ⟸   ENSRNOT00000067309
Ensembl Acc Id: ENSRNOP00000071162   ⟸   ENSRNOT00000088909
RefSeq Acc Id: NP_001381658   ⟸   NM_001394729
- UniProtKB: A0A0G2JZS4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063130418   ⟸   XM_063274348
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063130417   ⟸   XM_063274347
- Peptide Label: isoform X1
Protein Domains
NAD(P)-binding

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JZS4-F1-model_v2 AlphaFold A0A0G2JZS4 1-355 view protein structure

Transcriptome

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

Promoters
RGD ID:13699871
Promoter ID:EPDNEW_R10394
Type:multiple initiation site
Name:Tgds_1
Description:TDP-glucose 4,6-dehydratase
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_6.015103,340,216 - 103,340,276EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306544 AgrOrtholog
BioCyc Gene G2FUF-12452 BioCyc
Ensembl Genes ENSRNOG00000009661 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000088909 ENTREZGENE
  ENSRNOT00000088909.3 UniProtKB/TrEMBL
Gene3D-CATH NAD(P)-binding Rossmann-like Domain UniProtKB/TrEMBL
  UDP-galactose 4-epimerase, domain 1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7309713 IMAGE-MGC_LOAD
InterPro dTDP_Gluc_deHydtase UniProtKB/TrEMBL
  NAD(P)-bd_dom UniProtKB/TrEMBL
  NAD(P)-bd_dom_sf UniProtKB/TrEMBL
MGC_CLONE MGC:189124 IMAGE-MGC_LOAD
NCBI Gene 306164 ENTREZGENE
PANTHER DTDP-D-GLUCOSE 4,6-DEHYDRATASE-RELATED UniProtKB/TrEMBL
Pfam GDP_Man_Dehyd UniProtKB/TrEMBL
PhenoGen Tgds PhenoGen
RatGTEx ENSRNOG00000009661 RatGTEx
Superfamily-SCOP SSF51735 UniProtKB/TrEMBL
UniProt A0A0G2JZS4 ENTREZGENE, UniProtKB/TrEMBL
  B2RZ18_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Tgds  TDP-glucose 4,6-dehydratase   Tgds_predicted  TDP-glucose 4,6-dehydratase (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Tgds_predicted  TDP-glucose 4,6-dehydratase (predicted)      Symbol and Name status set to approved 70820 APPROVED