Tdrp (testis development related protein) - Rat Genome Database

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Gene: Tdrp (testis development related protein) Rattus norvegicus
Analyze
Symbol: Tdrp
Name: testis development related protein
RGD ID: 1559733
Description: Predicted to be involved in spermatogenesis. Predicted to be located in mitochondrion. Predicted to be active in cytosol and nucleus. Orthologous to human TDRP (testis development related protein); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC498662; LOC498662; similar to RIKEN cDNA 2610019F03; testis development-related protein; uncharacterized protein C8orf42 homolog
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
GRCr81682,326,837 - 82,354,861 (+)NCBIGRCr8
mRatBN7.21675,624,047 - 75,652,635 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1675,624,907 - 75,652,420 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1680,902,612 - 80,927,563 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01684,356,152 - 84,381,081 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01679,607,927 - 79,635,349 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01680,729,342 - 80,755,397 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1680,729,400 - 80,755,415 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01680,296,522 - 80,322,806 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41680,461,695 - 80,489,957 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1673,436,077 - 73,461,195 (+)NCBICelera
Cytogenetic Map16q12.5NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
spermatogenesis  (IBA,IEA,ISO)

Cellular Component

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
3. 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:20170638   PMID:34800366  


Genomics

Comparative Map Data
Tdrp
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81682,326,837 - 82,354,861 (+)NCBIGRCr8
mRatBN7.21675,624,047 - 75,652,635 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1675,624,907 - 75,652,420 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1680,902,612 - 80,927,563 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01684,356,152 - 84,381,081 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01679,607,927 - 79,635,349 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01680,729,342 - 80,755,397 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1680,729,400 - 80,755,415 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01680,296,522 - 80,322,806 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41680,461,695 - 80,489,957 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1673,436,077 - 73,461,195 (+)NCBICelera
Cytogenetic Map16q12.5NCBI
TDRP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh388489,946 - 545,780 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl8489,803 - 545,781 (-)EnsemblGRCh38hg38GRCh38
GRCh378439,946 - 495,780 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 368431,646 - 485,331 (-)NCBINCBI36Build 36hg18NCBI36
Celera8409,563 - 463,346 (-)NCBICelera
Cytogenetic Map8p23.3NCBI
HuRef8283,774 - 340,290 (-)NCBIHuRef
CHM1_18439,499 - 495,469 (-)NCBICHM1_1
T2T-CHM13v2.08249,159 - 342,875 (-)NCBIT2T-CHM13v2.0
Tdrp
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39814,002,008 - 14,025,484 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl814,002,008 - 14,025,032 (-)EnsemblGRCm39 Ensembl
GRCm38813,952,008 - 13,975,478 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl813,952,008 - 13,975,032 (-)EnsemblGRCm38mm10GRCm38
MGSCv37813,952,008 - 13,974,777 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36813,951,986 - 13,974,667 (-)NCBIMGSCv36mm8
Celera814,112,393 - 14,134,895 (-)NCBICelera
Cytogenetic Map8A1.1NCBI
cM Map86.44NCBI
Tdrp
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540358,699,433 - 58,714,475 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540358,694,134 - 58,714,440 (+)NCBIChiLan1.0ChiLan1.0
TDRP
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2715,170,006 - 15,225,493 (-)NCBINHGRI_mPanPan1-v2
Mhudiblu_PPA_v086,855,274 - 6,911,647 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.18404,649 - 417,914 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl8404,649 - 409,450 (-)Ensemblpanpan1.1panPan2
TDRP
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12537,484,952 - 37,525,672 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2537,485,566 - 37,525,726 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2538,085,683 - 38,089,327 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02537,721,006 - 37,761,465 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.12537,664,221 - 37,704,870 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02537,502,230 - 37,542,948 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02537,677,406 - 37,717,838 (-)NCBIUU_Cfam_GSD_1.0
Tdrp
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404943133,909 - 137,880 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936615135,436 - 137,880 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936615133,602 - 137,880 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TDRP
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1532,408,511 - 32,419,636 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11532,415,443 - 32,476,069 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
TDRP
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.18267,302 - 323,918 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605441,906,135 - 41,964,704 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tdrp
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624861202,879 - 225,758 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624861201,401 - 224,961 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tdrp
273 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:467
Count of miRNA genes:242
Interacting mature miRNAs:301
Transcripts:ENSRNOT00000036383
Prediction methods:Microtar, Miranda, 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
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)163775215682752156Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165272646484729064Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)163528887080288870Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)163775215682752156Rat
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165272646484729064Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165272646484729064Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164239634584729064Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
631525Pia14Pristane induced arthritis QTL 144.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)165571108783402471Rat

Markers in Region
RH129427  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21675,651,437 - 75,651,858 (+)MAPPERmRatBN7.2
Rnor_6.01680,754,200 - 80,754,620NCBIRnor6.0
Rnor_5.01680,321,609 - 80,322,029UniSTSRnor5.0
RGSC_v3.41680,488,974 - 80,489,394UniSTSRGSC3.4
Celera1673,460,212 - 73,460,632UniSTS
RH 3.4 Map16744.4UniSTS
Cytogenetic Map16q12.5UniSTS
RH130403  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21675,652,062 - 75,652,265 (+)MAPPERmRatBN7.2
Rnor_6.01680,754,825 - 80,755,027NCBIRnor6.0
Rnor_5.01680,322,234 - 80,322,436UniSTSRnor5.0
RGSC_v3.41680,489,599 - 80,489,801UniSTSRGSC3.4
Celera1673,460,837 - 73,461,039UniSTS
RH 3.4 Map16732.1UniSTS
Cytogenetic Map16q12.5UniSTS
RH126571  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21675,652,182 - 75,652,414 (+)MAPPERmRatBN7.2
Rnor_6.01680,754,945 - 80,755,176NCBIRnor6.0
Rnor_5.01680,322,354 - 80,322,585UniSTSRnor5.0
RGSC_v3.41680,489,719 - 80,489,950UniSTSRGSC3.4
Celera1673,460,957 - 73,461,188UniSTS
Cytogenetic Map16q12.5UniSTS


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: ENSRNOT00000036383   ⟹   ENSRNOP00000028935
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1675,624,907 - 75,652,420 (+)Ensembl
Rnor_6.0 Ensembl1680,729,400 - 80,755,182 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000082049   ⟹   ENSRNOP00000069082
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1675,646,396 - 75,652,420 (+)Ensembl
Rnor_6.0 Ensembl1680,729,959 - 80,755,415 (+)Ensembl
RefSeq Acc Id: NM_001100791   ⟹   NP_001094261
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81682,327,133 - 82,354,861 (+)NCBI
mRatBN7.21675,624,909 - 75,652,635 (+)NCBI
Rnor_6.01680,729,400 - 80,755,183 (+)NCBI
Rnor_5.01680,296,522 - 80,322,806 (+)NCBI
RGSC_v3.41680,461,695 - 80,489,957 (+)RGD
Celera1673,436,077 - 73,461,195 (+)RGD
Sequence:
RefSeq Acc Id: XM_006253399   ⟹   XP_006253461
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81682,327,142 - 82,354,861 (+)NCBI
mRatBN7.21675,624,918 - 75,652,635 (+)NCBI
Rnor_6.01680,729,413 - 80,755,397 (+)NCBI
Rnor_5.01680,296,522 - 80,322,806 (+)NCBI
Sequence:
RefSeq Acc Id: XM_063275650   ⟹   XP_063131720
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81682,326,837 - 82,354,861 (+)NCBI
RefSeq Acc Id: XM_063275651   ⟹   XP_063131721
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81682,327,142 - 82,354,861 (+)NCBI
RefSeq Acc Id: NP_001094261   ⟸   NM_001100791
- UniProtKB: Q498E2 (UniProtKB/Swiss-Prot),   B5DEK3 (UniProtKB/TrEMBL),   A0A8L2UPG2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006253461   ⟸   XM_006253399
- Peptide Label: isoform X2
- UniProtKB: A0A8L2QFM2 (UniProtKB/TrEMBL),   A6IWE7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000069082   ⟸   ENSRNOT00000082049
Ensembl Acc Id: ENSRNOP00000028935   ⟸   ENSRNOT00000036383
RefSeq Acc Id: XP_063131720   ⟸   XM_063275650
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063131721   ⟸   XM_063275651
- Peptide Label: isoform X3
- UniProtKB: Q498E2 (UniProtKB/Swiss-Prot),   B5DEK3 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q498E2-F1-model_v2 AlphaFold Q498E2 1-182 view protein structure

Transcriptome

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

Promoters
RGD ID:13700220
Promoter ID:EPDNEW_R10744
Type:initiation region
Name:Tdrp_2
Description:testis development related protein
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R10745  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01680,729,419 - 80,729,479EPDNEW
RGD ID:13700229
Promoter ID:EPDNEW_R10745
Type:initiation region
Name:Tdrp_1
Description:testis development related protein
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R10744  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01680,730,000 - 80,730,060EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1559733 AgrOrtholog
BioCyc Gene G2FUF-10740 BioCyc
Ensembl Genes ENSRNOG00000027245 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000036383.5 UniProtKB/TrEMBL
  ENSRNOT00000082049.2 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7454791 IMAGE-MGC_LOAD
InterPro TDRP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:498662 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:116164 IMAGE-MGC_LOAD
NCBI Gene 498662 ENTREZGENE
PANTHER TESTIS DEVELOPMENT-RELATED PROTEIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TESTIS DEVELOPMENT-RELATED PROTEIN-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam TDRP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tdrp PhenoGen
RatGTEx ENSRNOG00000027245 RatGTEx
UniProt A0A8L2QFM2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2UPG2 ENTREZGENE, UniProtKB/TrEMBL
  A6IWE7 ENTREZGENE, UniProtKB/TrEMBL
  B5DEK3 ENTREZGENE, UniProtKB/TrEMBL
  Q498E2 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-06-14 Tdrp  testis development related protein  LOC498662  similar to RIKEN cDNA 2610019F03  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC498662  similar to RIKEN cDNA 2610019F03      Symbol and Name status set to provisional 70820 PROVISIONAL