PTBP2 (polypyrimidine tract binding protein 2) - Rat Genome Database

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Gene: PTBP2 (polypyrimidine tract binding protein 2) Sus scrofa
Analyze
Symbol: PTBP2
Name: polypyrimidine tract binding protein 2
RGD ID: 14231117
Description: ENCODES a protein that exhibits mRNA binding (inferred); RNA binding (inferred); INVOLVED IN cerebellum development (ortholog); mRNA splice site recognition (ortholog); negative regulation of RNA splicing (ortholog); PARTICIPATES IN spliceosome pathway; ASSOCIATED WITH genetic disease (ortholog); FOUND IN growth cone (ortholog); neuronal cell body (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: nPTB; polypyrimidine tract-binding protein 2
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4120,961,381 - 121,041,802 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.14120,961,211 - 121,041,876 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24132,800,514 - 132,848,125 (-)NCBISscrofa10.2Sscrofa10.2susScr3
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

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:14681463   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
PTBP2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4120,961,381 - 121,041,802 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.14120,961,211 - 121,041,876 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24132,800,514 - 132,848,125 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PTBP2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38196,721,784 - 96,823,739 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl196,721,665 - 96,823,738 (+)EnsemblGRCh38hg38GRCh38
GRCh37197,187,340 - 97,289,295 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36196,959,966 - 97,052,937 (+)NCBINCBI36Build 36hg18NCBI36
Build 34196,899,398 - 96,992,367NCBI
Celera195,441,461 - 95,534,886 (+)NCBICelera
Cytogenetic Map1p21.3NCBI
HuRef195,308,506 - 95,401,741 (+)NCBIHuRef
CHM1_1197,303,210 - 97,396,589 (+)NCBICHM1_1
T2T-CHM13v2.0196,569,913 - 96,671,844 (+)NCBIT2T-CHM13v2.0
Ptbp2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393119,512,390 - 119,578,296 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl3119,512,391 - 119,578,115 (-)EnsemblGRCm39 Ensembl
GRCm383119,718,741 - 119,784,647 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3119,718,742 - 119,784,466 (-)EnsemblGRCm38mm10GRCm38
MGSCv373119,421,660 - 119,486,306 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv363119,710,998 - 119,775,262 (-)NCBIMGSCv36mm8
Celera3126,129,123 - 126,191,916 (-)NCBICelera
Cytogenetic Map3G1NCBI
cM Map352.18NCBI
Ptbp2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82210,497,610 - 210,558,497 (-)NCBIGRCr8
mRatBN7.22207,812,659 - 207,874,019 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2207,812,920 - 207,873,506 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2215,463,900 - 215,523,276 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02213,387,983 - 213,447,341 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02208,213,458 - 208,272,785 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02223,261,444 - 223,323,075 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2223,262,852 - 223,322,585 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02241,306,857 - 241,368,189 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42216,188,745 - 216,249,176 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera2200,269,277 - 200,328,535 (-)NCBICelera
Cytogenetic Map2q42NCBI
Ptbp2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554351,702,962 - 1,774,334 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554351,703,588 - 1,773,016 (+)NCBIChiLan1.0ChiLan1.0
PTBP2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21130,211,817 - 130,303,081 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11129,366,565 - 129,457,692 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0199,382,924 - 99,474,053 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1198,105,913 - 98,196,729 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl198,105,913 - 98,196,723 (+)Ensemblpanpan1.1panPan2
PTBP2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1652,870,944 - 52,948,673 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl652,872,310 - 52,949,025 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha655,556,557 - 55,640,856 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0653,223,659 - 53,275,783 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl653,223,576 - 53,303,282 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1652,917,509 - 52,995,061 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0652,896,678 - 52,974,367 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0653,342,619 - 53,426,749 (-)NCBIUU_Cfam_GSD_1.0
Ptbp2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405058106,199,552 - 106,271,053 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365372,676,130 - 2,747,524 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365372,676,920 - 2,748,568 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PTBP2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12036,465,812 - 36,559,480 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2036,464,689 - 36,559,307 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603381,500,833 - 81,593,658 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ptbp2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624742783,612 - 855,900 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624742783,612 - 856,039 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in PTBP2
1440 total Variants

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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 5 2 3 5 1 23 2 3 2
Low 5 2 1 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000007533   ⟹   ENSSSCP00000007334
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl4120,961,382 - 121,041,053 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000022271   ⟹   ENSSSCP00000022075
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl4120,961,381 - 121,041,802 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000024275   ⟹   ENSSSCP00000025864
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl4120,961,381 - 121,006,069 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000098391   ⟹   ENSSSCP00000079928
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl4120,969,718 - 121,040,085 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000105982   ⟹   ENSSSCP00000076500
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl4120,962,833 - 121,041,053 (-)Ensembl
RefSeq Acc Id: XM_021090154   ⟹   XP_020945813
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.14120,961,211 - 121,041,876 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021090155   ⟹   XP_020945814
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.14120,961,211 - 121,041,876 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021090156   ⟹   XP_020945815
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.14120,961,469 - 121,041,876 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021090157   ⟹   XP_020945816
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.14120,961,469 - 121,041,834 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_020945814   ⟸   XM_021090155
- Peptide Label: isoform X2
- UniProtKB: A0A8D0I9Y7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020945813   ⟸   XM_021090154
- Peptide Label: isoform X1
- UniProtKB: A0A8D0YWU3 (UniProtKB/TrEMBL),   I3LDE4 (UniProtKB/TrEMBL),   A0A8D0I9Y7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020945815   ⟸   XM_021090156
- Peptide Label: isoform X3
- UniProtKB: A0A4X1TRZ1 (UniProtKB/TrEMBL),   A0A4X1TU93 (UniProtKB/TrEMBL),   A0A8D0II25 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020945816   ⟸   XM_021090157
- Peptide Label: isoform X4
- UniProtKB: A0A4X1TU93 (UniProtKB/TrEMBL),   A0A8D0II25 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000022075   ⟸   ENSSSCT00000022271
RefSeq Acc Id: ENSSSCP00000007334   ⟸   ENSSSCT00000007533
RefSeq Acc Id: ENSSSCP00000025864   ⟸   ENSSSCT00000024275
RefSeq Acc Id: ENSSSCP00000076500   ⟸   ENSSSCT00000105982
RefSeq Acc Id: ENSSSCP00000079928   ⟸   ENSSSCT00000098391
Protein Domains
RRM


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000006879 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005009115 UniProtKB/TrEMBL
  ENSSSCG00015036342 UniProtKB/TrEMBL
  ENSSSCG00025061072 UniProtKB/TrEMBL
  ENSSSCG00030050305 UniProtKB/TrEMBL
  ENSSSCG00035014800 UniProtKB/TrEMBL
  ENSSSCG00040032822 UniProtKB/TrEMBL
  ENSSSCG00045033282 UniProtKB/TrEMBL
  ENSSSCG00050011892 UniProtKB/TrEMBL
  ENSSSCG00055001867 UniProtKB/TrEMBL
  ENSSSCG00060011240 UniProtKB/TrEMBL
  ENSSSCG00065050277 UniProtKB/TrEMBL
  ENSSSCG00070012359 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000007533 ENTREZGENE
  ENSSSCT00000007533.5 UniProtKB/TrEMBL
  ENSSSCT00000022271 ENTREZGENE
  ENSSSCT00000022271.4 UniProtKB/TrEMBL
  ENSSSCT00000024275.4 UniProtKB/TrEMBL
  ENSSSCT00000098391.1 UniProtKB/TrEMBL
  ENSSSCT00000105982.1 UniProtKB/TrEMBL
  ENSSSCT00005014237.1 UniProtKB/TrEMBL
  ENSSSCT00005014647.1 UniProtKB/TrEMBL
  ENSSSCT00005015019.1 UniProtKB/TrEMBL
  ENSSSCT00005015100.1 UniProtKB/TrEMBL
  ENSSSCT00005015151.1 UniProtKB/TrEMBL
  ENSSSCT00015048833.1 UniProtKB/TrEMBL
  ENSSSCT00025083948.1 UniProtKB/TrEMBL
  ENSSSCT00025084225.1 UniProtKB/TrEMBL
  ENSSSCT00025084528.1 UniProtKB/TrEMBL
  ENSSSCT00030070229.1 UniProtKB/TrEMBL
  ENSSSCT00030070252.1 UniProtKB/TrEMBL
  ENSSSCT00030070283.1 UniProtKB/TrEMBL
  ENSSSCT00035018809.1 UniProtKB/TrEMBL
  ENSSSCT00035018819.1 UniProtKB/TrEMBL
  ENSSSCT00035018832.1 UniProtKB/TrEMBL
  ENSSSCT00040044497.1 UniProtKB/TrEMBL
  ENSSSCT00040044615.1 UniProtKB/TrEMBL
  ENSSSCT00040044738.1 UniProtKB/TrEMBL
  ENSSSCT00045057539.1 UniProtKB/TrEMBL
  ENSSSCT00045057742.1 UniProtKB/TrEMBL
  ENSSSCT00045057940.1 UniProtKB/TrEMBL
  ENSSSCT00050016023.1 UniProtKB/TrEMBL
  ENSSSCT00050016034.1 UniProtKB/TrEMBL
  ENSSSCT00050016053.1 UniProtKB/TrEMBL
  ENSSSCT00055003544.1 UniProtKB/TrEMBL
  ENSSSCT00055003558.1 UniProtKB/TrEMBL
  ENSSSCT00055003585.1 UniProtKB/TrEMBL
  ENSSSCT00060014698.1 UniProtKB/TrEMBL
  ENSSSCT00060014706.1 UniProtKB/TrEMBL
  ENSSSCT00060014721.1 UniProtKB/TrEMBL
  ENSSSCT00065068910.1 UniProtKB/TrEMBL
  ENSSSCT00065068917.1 UniProtKB/TrEMBL
  ENSSSCT00065068924.1 UniProtKB/TrEMBL
  ENSSSCT00070024116.1 UniProtKB/TrEMBL
  ENSSSCT00070024120.1 UniProtKB/TrEMBL
  ENSSSCT00070024134.1 UniProtKB/TrEMBL
  ENSSSCT00070024162.1 UniProtKB/TrEMBL
  ENSSSCT00070024168.1 UniProtKB/TrEMBL
  ENSSSCT00070024175.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.70.330 UniProtKB/TrEMBL
InterPro HnRNP-L/PTB UniProtKB/TrEMBL
  Nucleotide-bd_a/b_plait_sf UniProtKB/TrEMBL
  PTBP1_RRM UniProtKB/TrEMBL
  PTBP2_RRM1 UniProtKB/TrEMBL
  PTBP2_RRM3 UniProtKB/TrEMBL
  PTBP2_RRM4 UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/TrEMBL
  RRM_dom UniProtKB/TrEMBL
NCBI Gene PTBP2 ENTREZGENE
PANTHER MATRIN 3/NUCLEAR PROTEIN 220-RELATED UniProtKB/TrEMBL
  POLYPYRIMIDINE TRACT-BINDING PROTEIN 2 UniProtKB/TrEMBL
Pfam RRM_1 UniProtKB/TrEMBL
  RRM_5 UniProtKB/TrEMBL
  RRM_8 UniProtKB/TrEMBL
PROSITE RRM UniProtKB/TrEMBL
SMART RRM UniProtKB/TrEMBL
Superfamily-SCOP SSF54928 UniProtKB/TrEMBL
UniProt A0A4X1TRZ1 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1TU93 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1TWX1_PIG UniProtKB/TrEMBL
  A0A4X1TWZ8_PIG UniProtKB/TrEMBL
  A0A4X1TX39_PIG UniProtKB/TrEMBL
  A0A4X1TXG6_PIG UniProtKB/TrEMBL
  A0A8D0I9Y7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0IFT4_PIG UniProtKB/TrEMBL
  A0A8D0II25 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0LHH2_PIG UniProtKB/TrEMBL
  A0A8D0NHY1_PIG UniProtKB/TrEMBL
  A0A8D0YWU3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1IYT4_PIG UniProtKB/TrEMBL
  A0A8W4FDW5_PIG UniProtKB/TrEMBL
  A0A8W4FM01_PIG UniProtKB/TrEMBL
  I3LDE4 ENTREZGENE, UniProtKB/TrEMBL
  I3LP39_PIG UniProtKB/TrEMBL
  Q7YRH7_PIG UniProtKB/TrEMBL
UniProt Secondary F1S549 UniProtKB/TrEMBL
VGNC ID VGNC:91937 ENTREZGENE