Tpd52l1 (TPD52 like 1) - Rat Genome Database

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Gene: Tpd52l1 (TPD52 like 1) Rattus norvegicus
Analyze
Symbol: Tpd52l1
Name: TPD52 like 1
RGD ID: 1594796
Description: Predicted to enable protein homodimerization activity. Predicted to be involved in G2/M transition of mitotic cell cycle and positive regulation of signal transduction. Predicted to be located in perinuclear region of cytoplasm. Predicted to be active in cytoplasm. Orthologous to human TPD52L1 (TPD52 like 1); INTERACTS WITH (S)-colchicine; 1,3-dinitrobenzene; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC689256; similar to Tumor protein D53 (mD53) (Tumor protein D52-like 1); tumor protein D52-like 1; tumor protein D53
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2126,172,038 - 26,290,704 (+)NCBI
Rnor_6.0 Ensembl128,454,966 - 28,576,553 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0128,454,949 - 28,578,736 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0129,910,205 - 30,031,364 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4126,788,964 - 26,951,930 (+)NCBIRGSC3.4rn4RGSC3.4
Celera124,866,465 - 24,984,680 (+)NCBICelera
Cytogenetic Map1p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
(S)-colchicine  (EXP)
1,1-dichloroethene  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3-dinitrobenzene  (EXP)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-hydroxypropanoic acid  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
acrylamide  (EXP)
afimoxifene  (ISO)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (EXP,ISO)
arsenous acid  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butan-1-ol  (ISO)
C60 fullerene  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
carmustine  (ISO)
chlorohydrocarbon  (EXP)
choline  (ISO)
cidofovir anhydrous  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clodronic acid  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
corticosterone  (EXP)
coumestrol  (ISO)
cyclosporin A  (ISO)
daidzein  (ISO)
desferrioxamine B  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
dioxygen  (ISO)
dorsomorphin  (ISO)
Enterolactone  (ISO)
entinostat  (ISO)
ethanol  (ISO)
ferric ammonium citrate  (ISO)
folic acid  (ISO)
genistein  (ISO)
ibuprofen  (ISO)
indometacin  (ISO)
isobutanol  (ISO)
isotretinoin  (ISO)
L-methionine  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
lithium chloride  (ISO)
mercury dibromide  (ISO)
methylmercury chloride  (EXP,ISO)
N-acetyl-1,4-benzoquinone imine  (ISO)
nickel atom  (ISO)
p-chloromercuribenzoic acid  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
perfluorononanoic acid  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
potassium chromate  (ISO)
progesterone  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
scopolamine  (EXP)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
succimer  (ISO)
sunitinib  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
testosterone enanthate  (ISO)
tetrachloromethane  (ISO)
titanium dioxide  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
troglitazone  (ISO)
valproic acid  (ISO)
vincaleukoblastine  (EXP,ISO)
vincristine  (EXP)
vorinostat  (ISO)
XL147  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:9484778   PMID:12477932   PMID:12963375   PMID:14761963   PMID:16112108  


Genomics

Comparative Map Data
Tpd52l1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2126,172,038 - 26,290,704 (+)NCBI
Rnor_6.0 Ensembl128,454,966 - 28,576,553 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0128,454,949 - 28,578,736 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0129,910,205 - 30,031,364 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4126,788,964 - 26,951,930 (+)NCBIRGSC3.4rn4RGSC3.4
Celera124,866,465 - 24,984,680 (+)NCBICelera
Cytogenetic Map1p11NCBI
TPD52L1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl6125,119,049 - 125,264,407 (+)EnsemblGRCh38hg38GRCh38
GRCh386125,153,730 - 125,264,407 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh376125,474,919 - 125,585,553 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366125,516,578 - 125,626,343 (+)NCBINCBI36hg18NCBI36
Build 346125,516,577 - 125,626,343NCBI
Celera6126,219,917 - 126,329,682 (+)NCBI
Cytogenetic Map6q22.31NCBI
HuRef6123,051,499 - 123,161,419 (+)NCBIHuRef
CHM1_16125,738,369 - 125,848,402 (+)NCBICHM1_1
Tpd52l1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391031,208,369 - 31,321,989 (-)NCBIGRCm39mm39
GRCm39 Ensembl1031,208,372 - 31,321,954 (-)Ensembl
GRCm381031,332,373 - 31,445,987 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1031,332,376 - 31,445,958 (-)EnsemblGRCm38mm10GRCm38
MGSCv371031,052,186 - 31,165,727 (-)NCBIGRCm37mm9NCBIm37
MGSCv361031,021,796 - 31,135,337 (-)NCBImm8
Celera1032,258,878 - 32,370,418 (-)NCBICelera
Cytogenetic Map10A4NCBI
Tpd52l1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554366,602,051 - 6,671,978 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554366,648,140 - 6,672,474 (+)NCBIChiLan1.0ChiLan1.0
TPD52L1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.16127,062,800 - 127,172,174 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6127,062,573 - 127,172,174 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v06122,943,780 - 123,053,201 (+)NCBIMhudiblu_PPA_v0panPan3
TPD52L1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1164,165,833 - 64,216,851 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl164,125,934 - 64,216,787 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha164,930,142 - 65,027,093 (+)NCBI
ROS_Cfam_1.0164,327,601 - 64,424,695 (+)NCBI
UMICH_Zoey_3.1164,259,124 - 64,356,043 (+)NCBI
UNSW_CanFamBas_1.0164,045,704 - 64,142,576 (+)NCBI
UU_Cfam_GSD_1.0164,697,325 - 64,794,111 (+)NCBI
Tpd52l1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946114,174,715 - 114,265,718 (+)NCBI
SpeTri2.0NW_0049366394,153,418 - 4,244,427 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TPD52L1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl137,666,748 - 37,761,760 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1137,667,476 - 37,761,670 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2141,422,463 - 41,470,262 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TPD52L1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11348,450,068 - 48,559,488 (-)NCBI
ChlSab1.1 Ensembl1348,450,058 - 48,559,504 (-)Ensembl
Vero_WHO_p1.0NW_02366604020,761,404 - 20,869,804 (-)NCBI
Tpd52l1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247986,281,542 - 6,359,480 (-)NCBI

Position Markers
D1Got363  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2126,246,780 - 26,246,927 (+)MAPPER
Rnor_6.0128,532,247 - 28,532,393NCBIRnor6.0
Rnor_5.0129,987,507 - 29,987,653UniSTSRnor5.0
RGSC_v3.4126,907,538 - 26,907,684UniSTSRGSC3.4
Cytogenetic Map1p11UniSTS
AW524699  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2126,263,078 - 26,263,271 (+)MAPPER
Rnor_6.0128,548,908 - 28,549,100NCBIRnor6.0
Rnor_5.0130,003,872 - 30,004,064UniSTSRnor5.0
RGSC_v3.4126,923,724 - 26,923,916UniSTSRGSC3.4
Celera124,957,447 - 24,957,639UniSTS
Cytogenetic Map1p11UniSTS
BF404401  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2126,281,873 - 26,282,070 (+)MAPPER
Rnor_6.0128,567,708 - 28,567,904NCBIRnor6.0
Rnor_5.0130,022,486 - 30,022,682UniSTSRnor5.0
RGSC_v3.4126,942,284 - 26,942,480UniSTSRGSC3.4
Celera124,975,930 - 24,976,126UniSTS
RH 3.4 Map1275.4UniSTS
Cytogenetic Map1p11UniSTS
BF412420  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2126,192,099 - 26,192,219 (+)MAPPER
Rnor_6.0128,478,845 - 28,478,964NCBIRnor6.0
Rnor_5.0129,934,105 - 29,934,224UniSTSRnor5.0
RGSC_v3.4126,808,998 - 26,809,117UniSTSRGSC3.4
Celera124,886,517 - 24,886,636UniSTS
RH 3.4 Map1306.49UniSTS
Cytogenetic Map1p11UniSTS
AU047402  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2126,270,757 - 26,270,990 (+)MAPPER
Rnor_6.0128,556,592 - 28,556,824NCBIRnor6.0
Rnor_5.0130,011,370 - 30,011,602UniSTSRnor5.0
RGSC_v3.4126,931,168 - 26,931,400UniSTSRGSC3.4
Celera124,964,813 - 24,965,045UniSTS
Cytogenetic Map1p11UniSTS
RH136796  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2126,290,426 - 26,290,601 (+)MAPPER
Rnor_6.0128,576,277 - 28,576,451NCBIRnor6.0
Rnor_5.0130,031,087 - 30,031,261UniSTSRnor5.0
RGSC_v3.4126,951,653 - 26,951,827UniSTSRGSC3.4
Celera124,984,403 - 24,984,577UniSTS
RH 3.4 Map1273.0UniSTS
Cytogenetic Map1p11UniSTS
RH140170  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2126,290,193 - 26,290,373 (+)MAPPER
Rnor_6.0128,576,044 - 28,576,223NCBIRnor6.0
Rnor_5.0130,030,854 - 30,031,033UniSTSRnor5.0
RGSC_v3.4126,951,420 - 26,951,599UniSTSRGSC3.4
Celera124,984,170 - 24,984,349UniSTS
Cytogenetic Map1p11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2298546Neuinf4Neuroinflammation QTL 45.1nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1128468970Rat
2313053Bss51Bone structure and strength QTL 513.80.0001tibia length (VT:0004357)tibia length (CMO:0000450)1134993530Rat
2313070Bss52Bone structure and strength QTL 524.40.0001body length (VT:0001256)body length (CMO:0000013)1134993530Rat
2313090Bmd69Bone mineral density QTL 694.40.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)1134993530Rat
738020Pia8Pristane induced arthritis QTL 84.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1164407321Rat
1578650Bmd6Bone mineral density QTL 612.2femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)125439343579402Rat
1578651Bmd7Bone mineral density QTL 714.2femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)125439343579402Rat
1578669Bss9Bone structure and strength QTL 96.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)125439343579402Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)125439386904217Rat
1600360Mcs16Mammary carcinoma susceptibility QTL 162.4mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1186804543724576Rat
7421626Bp360Blood pressure QTL 3600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1457869349578693Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15655769122614963Rat
4889451Eae29Experimental allergic encephalomyelitis QTL 295.51nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1565577285706974Rat
1300167Hrtrt2Heart rate QTL 24.35heart pumping trait (VT:2000009)heart rate (CMO:0000002)11131448975844121Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)11131448983657083Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)11131448983657083Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)11131448983657083Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)11131448983657083Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)11131448983657083Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)11131448983657083Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)11131448983657083Rat
2317755Glom22Glomerulus QTL 223.8urine protein amount (VT:0005160)urine protein level (CMO:0000591)11131465834993348Rat
631508Sald1Serum aldosterone level QTL 13.7blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)11249343957493439Rat
2302038Pia31Pristane induced arthritis QTL 315.50.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)11362925158629251Rat
5684998Bss101Bone structure and strength QTL 1013.6tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)11614314349547474Rat
5684999Bss102Bone structure and strength QTL 1025.50.00000072tibia strength trait (VT:1000284)tibia stiffness (CMO:0001735)11614314349547474Rat
634353Rends2Renal damage susceptibility QTL 20.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)12034156058000154Rat
724520Bp145Blood pressure QTL 1452.10.0024arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12107930566079305Rat
631494Bp95Blood pressure QTL 95400.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12130082249454378Rat
1558642Prcr2Prostate cancer resistance QTL 24.3prostate integrity trait (VT:0010571)area of ventral prostate occupied by tumorous lesions to total ventral prostate area ratio (CMO:0000899)12181262344409802Rat
1357397Bw41Body weight QTL 414.190.0001body mass (VT:0001259)body weight (CMO:0000012)12340642849547474Rat
1357401Bw43Body weight QTL 433.75body mass (VT:0001259)body weight (CMO:0000012)12340642849547474Rat
1357400Bw62Body weight QTL624.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)12340642868406428Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)123406428108057505Rat
1358192Ept13Estrogen-induced pituitary tumorigenesis QTL 133.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)12429779978748000Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)125951907130917265Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:82
Count of miRNA genes:70
Interacting mature miRNAs:75
Transcripts:ENSRNOT00000030327
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.


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 22 7 7 7 42 27 25
Low 3 21 42 26 19 26 8 11 32 8 16 11 8
Below cutoff 8 8 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000030327   ⟹   ENSRNOP00000035722
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl128,455,051 - 28,576,553 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000078841   ⟹   ENSRNOP00000074667
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl128,454,966 - 28,576,261 (+)Ensembl
RefSeq Acc Id: NM_001044295   ⟹   NP_001037760
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2126,172,170 - 26,290,704 (+)NCBI
Rnor_6.0128,455,051 - 28,576,554 (+)NCBI
Rnor_5.0129,910,205 - 30,031,364 (+)NCBI
RGSC_v3.4126,788,964 - 26,951,930 (+)RGD
Celera124,866,465 - 24,984,680 (+)RGD
Sequence:
RefSeq Acc Id: XM_006227737   ⟹   XP_006227799
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2126,172,059 - 26,290,700 (+)NCBI
Rnor_6.0128,454,950 - 28,578,736 (+)NCBI
Rnor_5.0129,910,205 - 30,031,364 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006227739   ⟹   XP_006227801
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2126,172,038 - 26,290,700 (+)NCBI
Rnor_6.0128,454,949 - 28,578,736 (+)NCBI
Rnor_5.0129,910,205 - 30,031,364 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008758674   ⟹   XP_008756896
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2126,172,060 - 26,290,700 (+)NCBI
Rnor_6.0128,454,951 - 28,578,736 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039091345   ⟹   XP_038947273
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2126,172,056 - 26,290,223 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001037760   ⟸   NM_001044295
- UniProtKB: Q499Q2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006227801   ⟸   XM_006227739
- Peptide Label: isoform X4
- UniProtKB: A0A0G2K8M7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006227799   ⟸   XM_006227737
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008756896   ⟸   XM_008758674
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000035722   ⟸   ENSRNOT00000030327
RefSeq Acc Id: ENSRNOP00000074667   ⟸   ENSRNOT00000078841
RefSeq Acc Id: XP_038947273   ⟸   XM_039091345
- Peptide Label: isoform X3

Transcriptome

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

Promoters
RGD ID:13689541
Promoter ID:EPDNEW_R65
Type:single initiation site
Name:Tpd52l1_1
Description:tumor protein D52-like 1
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_6.0128,455,066 - 28,455,126EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1594796 AgrOrtholog
Ensembl Genes ENSRNOG00000021478 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000035722 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000074667 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000030327 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000078841 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:5621894 IMAGE-MGC_LOAD
InterPro TPD52 UniProtKB/TrEMBL
KEGG Report rno:689256 UniProtKB/TrEMBL
MGC_CLONE MGC:124774 IMAGE-MGC_LOAD
NCBI Gene 689256 ENTREZGENE
PANTHER TPD52 UniProtKB/TrEMBL
Pfam TPD52 UniProtKB/TrEMBL
PhenoGen Tpd52l1 PhenoGen
UniProt A0A0G2K8M7 ENTREZGENE, UniProtKB/TrEMBL
  Q499Q2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-08-21 Tpd52l1  TPD52 like 1  Tpd52l1  tumor protein D52-like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-06 Tpd52l1  tumor protein D52-like 1  LOC689256  similar to Tumor protein D53 (mD53) (Tumor protein D52-like 1)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC689256  similar to Tumor protein D53 (mD53) (Tumor protein D52-like 1)      Symbol and Name status set to provisional 70820 PROVISIONAL