Ptbp1 (polypyrimidine tract binding protein 1) - Rat Genome Database

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Gene: Ptbp1 (polypyrimidine tract binding protein 1) Rattus norvegicus
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Symbol: Ptbp1
Name: polypyrimidine tract binding protein 1
RGD ID: 62047
Description: Enables DNA binding activity; RNA binding activity; and single-stranded DNA endodeoxyribonuclease activity. Involved in several processes, including positive regulation of cellular component organization; positive regulation of insulin secretion; and regulation of gene expression. Located in neuron projection terminus. Orthologous to human PTBP1 (polypyrimidine tract binding protein 1); PARTICIPATES IN spliceosome pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: heterogeneous nuclear ribonucleoprotein I; hnRNP I; polypyrimidine tract binding protein; polypyrimidine tract-binding protein 1; Ptb; PTB1; Pybp; Pybp1; Pybp2; pyrimidine binding protein 1; pyrimidine binding protein 2; pyrimidine-binding protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Related Pseudogenes: Ptbp1-ps3  
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8710,493,199 - 10,502,957 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl710,493,200 - 10,502,957 (-)EnsemblGRCr8
mRatBN7.279,842,574 - 9,852,332 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl79,842,574 - 9,852,397 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx712,723,282 - 12,733,019 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0714,601,365 - 14,611,102 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0712,461,256 - 12,471,001 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0712,663,965 - 12,673,723 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl712,663,965 - 12,673,718 (-)Ensemblrn6Rnor6.0
Rnor_5.0712,833,687 - 12,843,445 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4711,355,538 - 11,365,188 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera78,017,276 - 8,027,027 (-)NCBICelera
Cytogenetic Map7q11NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (EXP,ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,6-dimethoxyphenol  (ISO)
2,6-dinitrotoluene  (EXP)
2-methylcholine  (ISO)
3',5'-cyclic UMP  (ISO)
3-chloropropane-1,2-diol  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
7,12-dimethyltetraphene  (EXP)
aconitine  (EXP)
acrolein  (ISO)
acrylamide  (EXP,ISO)
all-trans-retinoic acid  (ISO)
AM-251  (ISO)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
bleomycin A2  (EXP)
bortezomib  (ISO)
cadmium acetate  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
carbon nanotube  (ISO)
cefaloridine  (EXP)
CGP 52608  (ISO)
choline  (ISO)
chrysene  (ISO)
cisplatin  (EXP,ISO)
clofibric acid  (EXP)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
coumarin  (ISO)
coumestrol  (ISO)
Cuprizon  (EXP)
diallyl trisulfide  (ISO)
diazinon  (ISO)
dibutyl phthalate  (EXP)
dicrotophos  (ISO)
dieldrin  (ISO)
dorsomorphin  (ISO)
Enterolactone  (ISO)
enzyme inhibitor  (ISO)
epoxiconazole  (ISO)
fenthion  (ISO)
flutamide  (EXP)
folic acid  (ISO)
FR900359  (ISO)
furfural  (ISO)
gentamycin  (EXP)
glutathione  (EXP)
hydrogen cyanide  (ISO)
isoflavones  (EXP)
ivermectin  (ISO)
L-methionine  (ISO)
lead(0)  (ISO)
lipopolysaccharide  (ISO)
mercury atom  (ISO)
mercury(0)  (ISO)
Mesaconitine  (EXP)
methidathion  (ISO)
methotrexate  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
ozone  (ISO)
paracetamol  (ISO)
pentachlorophenol  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (ISO)
PhIP  (EXP)
potassium cyanide  (ISO)
quercetin  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium chloride  (ISO)
sodium fluoride  (ISO)
Soman  (EXP)
testosterone enanthate  (ISO)
tetrachloromethane  (ISO)
tetraphene  (ISO)
thapsigargin  (EXP)
thioacetamide  (EXP)
titanium dioxide  (ISO)
trimellitic anhydride  (ISO)
triptonide  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Cloning and sequencing of PYBP, a pyrimidine-rich specific single strand DNA-binding protein. Brunel F, etal., Nucleic Acids Res 1991 Oct 11;19(19):5237-45.
2. 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.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. A novel polypyrimidine tract-binding protein paralog expressed in smooth muscle cells. Gooding C, etal., J Biol Chem 2003 Apr 25;278(17):15201-7. Epub 2003 Feb 10.
5. MBNL1 and PTB cooperate to repress splicing of Tpm1 exon 3. Gooding C, etal., Nucleic Acids Res. 2013 May;41(9):4765-82. doi: 10.1093/nar/gkt168. Epub 2013 Mar 19.
6. A novel structure-specific endonuclease activity associated with polypyrimidine-tract binding (PTB) related protein from rat testis. Haldar D, etal., Biochemistry 2002 Oct 1;41(39):11628-41.
7. The rat poly pyrimidine tract binding protein (PTB) interacts with a single-stranded DNA motif in a liver-specific enhancer. Jansen-Durr P, etal., Nucleic Acids Res. 1992 Mar 25;20(6):1243-9.
8. Polypyrimidine tract-binding protein promotes insulin secretory granule biogenesis. Knoch KP, etal., Nat Cell Biol. 2004 Mar;6(3):207-14. Epub 2004 Feb 22.
9. Alternative splicing: a pivotal step between eukaryotic transcription and translation. Kornblihtt AR, etal., Nat Rev Mol Cell Biol. 2013 Mar;14(3):153-65. doi: 10.1038/nrm3525. Epub 2013 Feb 6.
10. Mutations in RRM4 uncouple the splicing repression and RNA-binding activities of polypyrimidine tract binding protein. Liu H, etal., RNA 2002 Feb;8(2):137-49.
11. Relocalization of the polypyrimidine tract-binding protein during PKA-induced neurite growth. Ma S, etal., Biochim Biophys Acta. 2007 Jun;1773(6):912-23. Epub 2007 Feb 22.
12. The hnRNA-binding proteins hnRNP L and PTB are required for efficient translation of the Cat-1 arginine/lysine transporter mRNA during amino acid starvation. Majumder M, etal., Mol Cell Biol. 2009 May;29(10):2899-912. doi: 10.1128/MCB.01774-08. Epub 2009 Mar 9.
13. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
14. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
15. GOA pipeline RGD automated data pipeline
16. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
17. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
18. Competition of PTB with TIA proteins for binding to a U-rich cis-element determines tissue-specific splicing of the myosin phosphatase targeting subunit 1. Shukla S, etal., RNA. 2005 Nov;11(11):1725-36. Epub 2005 Sep 21.
19. 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.
20. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
21. Control of insulin mRNA stability in rat pancreatic islets. Regulatory role of a 3'-untranslated region pyrimidine-rich sequence. Tillmar L, etal., J Biol Chem. 2002 Jan 11;277(2):1099-106. Epub 2001 Nov 5.
22. Polypyrimidine tract binding proteins (PTB) regulate the expression of apoptotic genes and susceptibility to caspase-dependent apoptosis in differentiating cardiomyocytes. Zhang J, etal., Cell Death Differ. 2009 Nov;16(11):1460-8. doi: 10.1038/cdd.2009.87. Epub 2009 Jul 10.
Additional References at PubMed
PMID:10716735   PMID:15009664   PMID:16260624   PMID:16282332   PMID:16459313   PMID:17679093   PMID:18335065   PMID:19946888   PMID:20458337   PMID:21518792   PMID:21518806   PMID:22082260  
PMID:22658674   PMID:22681889   PMID:23636947   PMID:23853098   PMID:24530304   PMID:24625528   PMID:25800779   PMID:34012255   PMID:35352799   PMID:35997022   PMID:38563050  


Genomics

Comparative Map Data
Ptbp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8710,493,199 - 10,502,957 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl710,493,200 - 10,502,957 (-)EnsemblGRCr8
mRatBN7.279,842,574 - 9,852,332 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl79,842,574 - 9,852,397 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx712,723,282 - 12,733,019 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0714,601,365 - 14,611,102 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0712,461,256 - 12,471,001 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0712,663,965 - 12,673,723 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl712,663,965 - 12,673,718 (-)Ensemblrn6Rnor6.0
Rnor_5.0712,833,687 - 12,843,445 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4711,355,538 - 11,365,188 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera78,017,276 - 8,027,027 (-)NCBICelera
Cytogenetic Map7q11NCBI
PTBP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3819797,452 - 812,312 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl19797,075 - 812,327 (+)Ensemblhg38GRCh38
GRCh3719797,452 - 812,312 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3619748,411 - 763,327 (+)NCBIBuild 36Build 36hg18NCBI36
Build 3419748,410 - 763,327NCBI
Celera193,882 - 18,816 (-)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef19566,615 - 581,055 (+)NCBIHuRef
CHM1_119796,984 - 811,921 (+)NCBICHM1_1
T2T-CHM13v2.019751,931 - 766,786 (+)NCBIT2T-CHM13v2.0
Ptbp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391079,690,502 - 79,700,269 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1079,690,261 - 79,700,605 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381079,854,432 - 79,864,435 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1079,854,427 - 79,864,771 (+)Ensemblmm10GRCm38
MGSCv371079,317,350 - 79,327,178 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361079,257,809 - 79,267,900 (+)NCBIMGSCv36mm8
Celera1080,869,418 - 80,879,246 (+)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.72NCBI
Ptbp1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554956,987,182 - 7,002,492 (-)Ensembl
ChiLan1.0NW_0049554956,990,565 - 7,002,492 (-)NCBIChiLan1.0ChiLan1.0
PTBP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2205,128,176 - 5,143,164 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1194,366,061 - 4,381,063 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v019319,953 - 334,945 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.119766,372 - 781,888 (+)NCBIPanPan1.1PanPan1.1panPan2
PTBP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12057,806,450 - 57,818,435 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2057,807,826 - 57,818,359 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2057,608,475 - 57,620,432 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02058,548,741 - 58,560,735 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2058,548,741 - 58,560,697 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12057,603,413 - 57,615,372 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02058,083,168 - 58,095,128 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02058,286,193 - 58,298,155 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Ptbp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118217,507,888 - 217,518,465 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936588316,167 - 327,044 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936588316,348 - 326,895 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PTBP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl277,551,562 - 77,563,134 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1277,551,562 - 77,563,153 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2278,360,161 - 78,371,916 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PTBP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.16546,010 - 560,086 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl6545,964 - 562,630 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660818,365,736 - 8,379,517 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ptbp1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248287,750,323 - 7,762,589 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248287,750,419 - 7,762,645 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Ptbp1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11155,009,877 - 155,019,662 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Ptbp1
135 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:739
Count of miRNA genes:252
Interacting mature miRNAs:307
Transcripts:ENSRNOT00000041277, ENSRNOT00000044865
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7166965846669658Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)7123748937Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7721609752216097Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)71011291699900612Rat
2290372Gluco33Glucose level QTL 332.71blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)7131777942Rat
1300149Cm6Cardiac mass QTL 64.09heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)71104117804Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7170952746709527Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)71509236116977875Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7132612984Rat
1582260Bw72Body weight QTL 723.20.0043body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
1582261Bw69Body weight QTL 693.20.0048body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
1582262Bw75Body weight QTL 7530.0038body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)71011291660150541Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7946087754460877Rat
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7129716167Rat
1300138Hrtrt9Heart rate QTL 94.72heart pumping trait (VT:2000009)heart rate (CMO:0000002)71049882055498820Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134650782Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7132612984Rat

Markers in Region
RH128371  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21149,050,008 - 49,050,188 (+)MAPPERmRatBN7.2
mRatBN7.279,842,584 - 9,842,764 (+)MAPPERmRatBN7.2
Rnor_6.0712,663,976 - 12,664,155NCBIRnor6.0
Rnor_6.01151,494,714 - 51,494,893NCBIRnor6.0
Rnor_5.01154,674,121 - 54,674,300UniSTSRnor5.0
Rnor_5.0712,833,698 - 12,833,877UniSTSRnor5.0
RGSC_v3.41150,177,629 - 50,177,808UniSTSRGSC3.4
RGSC_v3.4711,355,477 - 11,355,656UniSTSRGSC3.4
Celera78,017,287 - 8,017,466UniSTS
Celera1148,716,420 - 48,716,599UniSTS
Cytogenetic Map7q11UniSTS
RH129173  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map7q11UniSTS
Ptb  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21149,050,033 - 49,050,190 (+)MAPPERmRatBN7.2
mRatBN7.279,842,609 - 9,842,766 (+)MAPPERmRatBN7.2
Rnor_6.01151,494,739 - 51,494,895NCBIRnor6.0
Rnor_6.0712,664,001 - 12,664,157NCBIRnor6.0
Rnor_5.0712,833,723 - 12,833,879UniSTSRnor5.0
Rnor_5.01154,674,146 - 54,674,302UniSTSRnor5.0
RGSC_v3.41150,177,654 - 50,177,810UniSTSRGSC3.4
RGSC_v3.4711,355,502 - 11,355,658UniSTSRGSC3.4
Celera78,017,312 - 8,017,468UniSTS
Celera1148,716,445 - 48,716,601UniSTS
Cytogenetic Map7q11UniSTS


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 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000041277   ⟹   ENSRNOP00000048322
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl710,493,200 - 10,501,211 (-)Ensembl
mRatBN7.2 Ensembl79,842,951 - 9,852,367 (-)Ensembl
Rnor_6.0 Ensembl712,664,037 - 12,673,687 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000044865   ⟹   ENSRNOP00000043256
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl710,493,200 - 10,502,957 (-)Ensembl
mRatBN7.2 Ensembl79,842,574 - 9,852,370 (-)Ensembl
Rnor_6.0 Ensembl712,663,965 - 12,673,718 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000091650   ⟹   ENSRNOP00000068856
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl710,493,200 - 10,498,966 (-)Ensembl
mRatBN7.2 Ensembl79,842,951 - 9,852,367 (-)Ensembl
Rnor_6.0 Ensembl712,665,120 - 12,673,659 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000093221
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl79,842,574 - 9,852,397 (-)Ensembl
Rnor_6.0 Ensembl712,668,905 - 12,672,105 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000093324
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl712,665,894 - 12,666,538 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000093362   ⟹   ENSRNOP00000076206
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl710,493,200 - 10,501,863 (-)Ensembl
mRatBN7.2 Ensembl79,842,951 - 9,852,367 (-)Ensembl
Rnor_6.0 Ensembl712,665,018 - 12,668,243 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000093388
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl712,663,965 - 12,669,181 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000093619
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl712,664,993 - 12,665,929 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000100764   ⟹   ENSRNOP00000077281
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl710,493,200 - 10,501,863 (-)Ensembl
mRatBN7.2 Ensembl79,842,574 - 9,851,743 (-)Ensembl
RefSeq Acc Id: NM_001271057   ⟹   NP_001257986
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8710,493,199 - 10,502,957 (-)NCBI
mRatBN7.279,842,574 - 9,852,332 (-)NCBI
Rnor_6.0712,663,965 - 12,673,723 (-)NCBI
Rnor_5.0712,833,687 - 12,843,445 (-)NCBI
Celera78,017,276 - 8,027,027 (-)NCBI
Sequence:
RefSeq Acc Id: NM_022516   ⟹   NP_071961
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8710,493,199 - 10,502,957 (-)NCBI
mRatBN7.279,842,574 - 9,852,332 (-)NCBI
Rnor_6.0712,663,965 - 12,673,723 (-)NCBI
Rnor_5.0712,833,687 - 12,843,445 (-)NCBI
RGSC_v3.4711,355,538 - 11,365,188 (-)RGD
Celera78,017,276 - 8,027,027 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039078590   ⟹   XP_038934518
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8710,493,199 - 10,502,773 (-)NCBI
mRatBN7.279,842,574 - 9,851,809 (-)NCBI
RefSeq Acc Id: XM_039078591   ⟹   XP_038934519
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8710,493,199 - 10,502,766 (-)NCBI
mRatBN7.279,842,647 - 9,851,795 (-)NCBI
RefSeq Acc Id: XR_010052946
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8710,494,910 - 10,502,799 (-)NCBI
RefSeq Acc Id: NP_071961   ⟸   NM_022516
- Peptide Label: isoform b
- UniProtKB: D3ZB30 (UniProtKB/TrEMBL),   A6K8W5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001257986   ⟸   NM_001271057
- Peptide Label: isoform a
- UniProtKB: Q63568 (UniProtKB/Swiss-Prot),   Q00438 (UniProtKB/Swiss-Prot),   F1LM18 (UniProtKB/Swiss-Prot),   Q6P736 (UniProtKB/TrEMBL),   A0A8J8YFZ4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000048322   ⟸   ENSRNOT00000041277
Ensembl Acc Id: ENSRNOP00000076206   ⟸   ENSRNOT00000093362
Ensembl Acc Id: ENSRNOP00000043256   ⟸   ENSRNOT00000044865
Ensembl Acc Id: ENSRNOP00000068856   ⟸   ENSRNOT00000091650
RefSeq Acc Id: XP_038934518   ⟸   XM_039078590
- Peptide Label: isoform X1
- UniProtKB: A0A8J8YFZ4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038934519   ⟸   XM_039078591
- Peptide Label: isoform X2
- UniProtKB: D3ZB30 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000077281   ⟸   ENSRNOT00000100764
Protein Domains
RRM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q00438-F1-model_v2 AlphaFold Q00438 1-555 view protein structure

Transcriptome

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

Promoters
RGD ID:13695044
Promoter ID:EPDNEW_R5569
Type:initiation region
Name:Ptbp1_1
Description:polypyrimidine tract binding protein 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_6.0712,673,705 - 12,673,765EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:62047 AgrOrtholog
BioCyc Gene G2FUF-34892 BioCyc
Ensembl Genes ENSRNOG00000010448 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000044865 ENTREZGENE
  ENSRNOT00000093362 ENTREZGENE
  ENSRNOT00000100764 ENTREZGENE
Gene3D-CATH 3.30.70.330 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:5598495 IMAGE-MGC_LOAD
InterPro HnRNP-L/PTB UniProtKB/Swiss-Prot
  Nucleotide-bd_a/b_plait_sf UniProtKB/Swiss-Prot
  PTBP1_RRM UniProtKB/Swiss-Prot
  PTBP1_RRM1 UniProtKB/Swiss-Prot
  PTBP1_RRM3 UniProtKB/Swiss-Prot
  RBD_domain_sf UniProtKB/Swiss-Prot
  RRM_dom UniProtKB/Swiss-Prot
KEGG Report rno:29497 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72282 IMAGE-MGC_LOAD
NCBI Gene 29497 ENTREZGENE
PANTHER MATRIN 3/NUCLEAR PROTEIN 220-RELATED UniProtKB/Swiss-Prot
Pfam RRM_1 UniProtKB/Swiss-Prot
  RRM_5 UniProtKB/Swiss-Prot
  RRM_8 UniProtKB/Swiss-Prot
PhenoGen Ptbp1 PhenoGen
PROSITE RRM UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000010448 RatGTEx
SMART RRM UniProtKB/Swiss-Prot
Superfamily-SCOP SSF54928 UniProtKB/Swiss-Prot
TIGR TC228565
UniProt A0A0G2JTV1_RAT UniProtKB/TrEMBL
  A0A1W2Q6A9_RAT UniProtKB/TrEMBL
  A0A8I5Y0Z3_RAT UniProtKB/TrEMBL
  A0A8J8YFZ4 ENTREZGENE, UniProtKB/TrEMBL
  A6K8W4_RAT UniProtKB/TrEMBL
  A6K8W5 ENTREZGENE, UniProtKB/TrEMBL
  A6K8W7_RAT UniProtKB/TrEMBL
  D3ZB30 ENTREZGENE, UniProtKB/TrEMBL
  F1LM18 ENTREZGENE
  PTBP1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q63568 ENTREZGENE
  Q6P736 ENTREZGENE
UniProt Secondary F1LM18 UniProtKB/Swiss-Prot
  Q63568 UniProtKB/Swiss-Prot
  Q6P736 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Ptbp1  polypyrimidine tract binding protein 1  Ptb  polypyrimidine tract binding protein   Symbol and Name updated 1299863 APPROVED
2002-06-10 Ptb  polypyrimidine tract binding protein       Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_domains contains four RNA-binding domains of the ribonucleoprotein fold type 633792
gene_function binds to intronic splicing repressor elements 633792
gene_function a DNA-binding protein 61718