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.t9 TSS g4259.t9 719824 719824
chr_2 g4259 g4259.t9 isoform g4259.t9 719932 724303
chr_2 g4259 g4259.t9 exon g4259.t9.exon1 719932 720033
chr_2 g4259 g4259.t9 cds g4259.t9.CDS1 719932 720033
chr_2 g4259 g4259.t9 exon g4259.t9.exon2 722972 723035
chr_2 g4259 g4259.t9 cds g4259.t9.CDS2 722972 723035
chr_2 g4259 g4259.t9 exon g4259.t9.exon3 723092 723591
chr_2 g4259 g4259.t9 cds g4259.t9.CDS3 723092 723591
chr_2 g4259 g4259.t9 exon g4259.t9.exon4 723668 723858
chr_2 g4259 g4259.t9 cds g4259.t9.CDS4 723668 723858
chr_2 g4259 g4259.t9 exon g4259.t9.exon5 723922 724089
chr_2 g4259 g4259.t9 cds g4259.t9.CDS5 723922 723994
chr_2 g4259 g4259.t9 exon g4259.t9.exon6 724150 724303
chr_2 g4259 g4259.t9 TTS g4259.t9 724624 724624

Sequences

>g4259.t9 Gene=g4259 Length=1179
ATGGAAGATAAGACGACACTGAAAGATCTAGATTCGTGGATTGAGCAATTGAACGAATGT
AAACAGCTTACCGAGAGTCAAGTTAAAATTCTTTGCGAGAAGGCTAAGGAGATCTTGGCT
AAAGAATCAAATGTGCAAGAAGTAAAATGTCCGGTGACAGTGTGTGGTGATGTTCATGGC
CAATTTCACGATTTGATGGAACTTTTTCGGATAGGAGGTCGATCACCTGATACTAATTAC
TTATTTATGGGCGATTATGTCGACCGTGGCTATTACAGTGTTGAGACAGTCACTCTTCTC
GTTGCACTTAAAGTTCGCTATCGTGAGAGAATTACAATTCTTCGTGGTAATCACGAGTCG
CGACAAATTACGCAAGTTTACGGATTCTATGATGAATGTTTGCGAAAATATGGAAATCCA
AATGTGTGGAAATATTTTACTGACCTATTTGATTATCTACCCCTTACTGCTCTCGTTGAT
GGACAAATATTTTGTTTGCATGGTGGCTTATCGCCATCGATTGACACACTCGATCACATT
AGAGCTCTTGATAGATTACAAGAAGTTCCACATGAAGGACCTATGTGTGATCTATTGTGG
AGTGATCCTGATGACCGAGGTGGATGGGGTATTTCACCTCGTGGAGCAGGATATACTTTC
GGTCAAGACATTTCCGAAATTTTTAATCATACTAATGGATTAACTTTAGTATCTCGCGCT
CATCAGTTAGTTATGGAAGGCTATAATTGGTGTCATGAACGCCACGTTGTCACAATATTC
TCAGCGCCAAACTACTGTTATCGATGCGGAAATCAAGCAGCATTAATGGAATTAGATGAT
TCATTGAAATTTTCATTCCTCCAATTTGATCCAGCACCTCGCCGCGGTGAGCCACATGTC
ACAAGAAGAACTCCTGATTATTTCCTATAAGTTTTTTATTATATATTAACCATCAAACAA
TGAAAAAGAGATAGAGAAAAAAATGAAGGAAAACTCTTAAAGATTGCATATACATACACA
CAACAGAAATAATAATGTATGCTATAAAAACAACAAGAAATTACATACCAGATAGACATA
AATACAATTCATTACTGGGTTTTATGACAGTCTGATATTGAAAACAGTTTAAACTTAAAT
ATGATTACAAGGAGGAATTTTATCAATGATTTATTGTTG

>g4259.t9 Gene=g4259 Length=309
MEDKTTLKDLDSWIEQLNECKQLTESQVKILCEKAKEILAKESNVQEVKCPVTVCGDVHG
QFHDLMELFRIGGRSPDTNYLFMGDYVDRGYYSVETVTLLVALKVRYRERITILRGNHES
RQITQVYGFYDECLRKYGNPNVWKYFTDLFDYLPLTALVDGQIFCLHGGLSPSIDTLDHI
RALDRLQEVPHEGPMCDLLWSDPDDRGGWGISPRGAGYTFGQDISEIFNHTNGLTLVSRA
HQLVMEGYNWCHERHVVTIFSAPNYCYRCGNQAALMELDDSLKFSFLQFDPAPRRGEPHV
TRRTPDYFL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g4259.t9 CDD cd07415 MPP_PP2A_PP4_PP6 9 293 0.0
12 g4259.t9 Gene3D G3DSA:3.60.21.10 - 1 309 8.7E-134
2 g4259.t9 PANTHER PTHR45619 SERINE/THREONINE-PROTEIN PHOSPHATASE PP2A-RELATED 1 309 1.7E-205
3 g4259.t9 PANTHER PTHR45619:SF44 SERINE/THREONINE-PROTEIN PHOSPHATASE 2A CATALYTIC SUBUNIT BETA ISOFORM 1 309 1.7E-205
10 g4259.t9 PRINTS PR00114 Serine/threonine phosphatase family signature 51 78 3.1E-91
7 g4259.t9 PRINTS PR00114 Serine/threonine phosphatase family signature 80 107 3.1E-91
6 g4259.t9 PRINTS PR00114 Serine/threonine phosphatase family signature 113 137 3.1E-91
4 g4259.t9 PRINTS PR00114 Serine/threonine phosphatase family signature 148 174 3.1E-91
5 g4259.t9 PRINTS PR00114 Serine/threonine phosphatase family signature 177 204 3.1E-91
9 g4259.t9 PRINTS PR00114 Serine/threonine phosphatase family signature 233 253 3.1E-91
8 g4259.t9 PRINTS PR00114 Serine/threonine phosphatase family signature 255 271 3.1E-91
1 g4259.t9 Pfam PF00149 Calcineurin-like phosphoesterase 51 242 1.4E-34
14 g4259.t9 ProSitePatterns PS00125 Serine/threonine specific protein phosphatases signature. 114 119 -
15 g4259.t9 SMART SM00156 pp2a_7 23 293 8.6E-154
11 g4259.t9 SUPERFAMILY SSF56300 Metallo-dependent phosphatases 5 294 6.81E-119

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