Gene loci information

Transcript annotation

  • This transcript has been annotated as Serine/threonine-protein phosphatase PP2A.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_2 g4259 g4259.t15 TSS g4259.t15 719824 719824
chr_2 g4259 g4259.t15 isoform g4259.t15 719932 727796
chr_2 g4259 g4259.t15 exon g4259.t15.exon1 719932 720039
chr_2 g4259 g4259.t15 cds g4259.t15.CDS1 719932 720039
chr_2 g4259 g4259.t15 exon g4259.t15.exon2 722972 723035
chr_2 g4259 g4259.t15 cds g4259.t15.CDS2 722972 723035
chr_2 g4259 g4259.t15 exon g4259.t15.exon3 723092 723591
chr_2 g4259 g4259.t15 cds g4259.t15.CDS3 723092 723591
chr_2 g4259 g4259.t15 exon g4259.t15.exon4 723668 723858
chr_2 g4259 g4259.t15 cds g4259.t15.CDS4 723668 723858
chr_2 g4259 g4259.t15 exon g4259.t15.exon5 723922 724091
chr_2 g4259 g4259.t15 cds g4259.t15.CDS5 723922 723994
chr_2 g4259 g4259.t15 exon g4259.t15.exon6 727766 727796
chr_2 g4259 g4259.t15 TTS g4259.t15 NA NA

Sequences

>g4259.t15 Gene=g4259 Length=1064
ATGGAAGATAAGACGACACTGAAAGATCTAGATTCGTGGATTGAGCAATTGAACGAATGT
AAACAGCTTACCGAGAGTCAAGTTAAAATTCTTTGCGAGAAGGTAAGAGCTAAGGAGATC
TTGGCTAAAGAATCAAATGTGCAAGAAGTAAAATGTCCGGTGACAGTGTGTGGTGATGTT
CATGGCCAATTTCACGATTTGATGGAACTTTTTCGGATAGGAGGTCGATCACCTGATACT
AATTACTTATTTATGGGCGATTATGTCGACCGTGGCTATTACAGTGTTGAGACAGTCACT
CTTCTCGTTGCACTTAAAGTTCGCTATCGTGAGAGAATTACAATTCTTCGTGGTAATCAC
GAGTCGCGACAAATTACGCAAGTTTACGGATTCTATGATGAATGTTTGCGAAAATATGGA
AATCCAAATGTGTGGAAATATTTTACTGACCTATTTGATTATCTACCCCTTACTGCTCTC
GTTGATGGACAAATATTTTGTTTGCATGGTGGCTTATCGCCATCGATTGACACACTCGAT
CACATTAGAGCTCTTGATAGATTACAAGAAGTTCCACATGAAGGACCTATGTGTGATCTA
TTGTGGAGTGATCCTGATGACCGAGGTGGATGGGGTATTTCACCTCGTGGAGCAGGATAT
ACTTTCGGTCAAGACATTTCCGAAATTTTTAATCATACTAATGGATTAACTTTAGTATCT
CGCGCTCATCAGTTAGTTATGGAAGGCTATAATTGGTGTCATGAACGCCACGTTGTCACA
ATATTCTCAGCGCCAAACTACTGTTATCGATGCGGAAATCAAGCAGCATTAATGGAATTA
GATGATTCATTGAAATTTTCATTCCTCCAATTTGATCCAGCACCTCGCCGCGGTGAGCCA
CATGTCACAAGAAGAACTCCTGATTATTTCCTATAAGTTTTTTATTATATATTAACCATC
AAACAATGAAAAAGAGATAGAGAAAAAAATGAAGGAAAACTCTTAAAGATTGCATATACA
TACACACAACAGTTTATCCTACTATTGCTTTTATAAAATTAACA

>g4259.t15 Gene=g4259 Length=311
MEDKTTLKDLDSWIEQLNECKQLTESQVKILCEKVRAKEILAKESNVQEVKCPVTVCGDV
HGQFHDLMELFRIGGRSPDTNYLFMGDYVDRGYYSVETVTLLVALKVRYRERITILRGNH
ESRQITQVYGFYDECLRKYGNPNVWKYFTDLFDYLPLTALVDGQIFCLHGGLSPSIDTLD
HIRALDRLQEVPHEGPMCDLLWSDPDDRGGWGISPRGAGYTFGQDISEIFNHTNGLTLVS
RAHQLVMEGYNWCHERHVVTIFSAPNYCYRCGNQAALMELDDSLKFSFLQFDPAPRRGEP
HVTRRTPDYFL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g4259.t15 CDD cd07415 MPP_PP2A_PP4_PP6 9 295 0.0
12 g4259.t15 Gene3D G3DSA:3.60.21.10 - 1 311 1.2E-131
2 g4259.t15 PANTHER PTHR45619 SERINE/THREONINE-PROTEIN PHOSPHATASE PP2A-RELATED 1 311 1.8E-203
3 g4259.t15 PANTHER PTHR45619:SF44 SERINE/THREONINE-PROTEIN PHOSPHATASE 2A CATALYTIC SUBUNIT BETA ISOFORM 1 311 1.8E-203
6 g4259.t15 PRINTS PR00114 Serine/threonine phosphatase family signature 53 80 3.1E-91
10 g4259.t15 PRINTS PR00114 Serine/threonine phosphatase family signature 82 109 3.1E-91
8 g4259.t15 PRINTS PR00114 Serine/threonine phosphatase family signature 115 139 3.1E-91
5 g4259.t15 PRINTS PR00114 Serine/threonine phosphatase family signature 150 176 3.1E-91
9 g4259.t15 PRINTS PR00114 Serine/threonine phosphatase family signature 179 206 3.1E-91
4 g4259.t15 PRINTS PR00114 Serine/threonine phosphatase family signature 235 255 3.1E-91
7 g4259.t15 PRINTS PR00114 Serine/threonine phosphatase family signature 257 273 3.1E-91
1 g4259.t15 Pfam PF00149 Calcineurin-like phosphoesterase 53 244 1.4E-34
14 g4259.t15 ProSitePatterns PS00125 Serine/threonine specific protein phosphatases signature. 116 121 -
15 g4259.t15 SMART SM00156 pp2a_7 23 295 2.8E-150
11 g4259.t15 SUPERFAMILY SSF56300 Metallo-dependent phosphatases 5 296 1.9E-116

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0016787 hydrolase activity MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.

Raw TPM values