General information for g4259.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Serine/threonine-protein phosphatase PP2A.
Parent gene
- The parent gene g4259 is located on chr_2: 723994..727796 (+ strand)
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.t12 | TSS | g4259.t12 | 719824 | 719824 |
| chr_2 | g4259 | g4259.t12 | isoform | g4259.t12 | 719932 | 724630 |
| chr_2 | g4259 | g4259.t12 | exon | g4259.t12.exon1 | 719932 | 720033 |
| chr_2 | g4259 | g4259.t12 | cds | g4259.t12.CDS1 | 719932 | 720033 |
| chr_2 | g4259 | g4259.t12 | exon | g4259.t12.exon2 | 722972 | 723035 |
| chr_2 | g4259 | g4259.t12 | cds | g4259.t12.CDS2 | 722972 | 723035 |
| chr_2 | g4259 | g4259.t12 | exon | g4259.t12.exon3 | 723092 | 723591 |
| chr_2 | g4259 | g4259.t12 | cds | g4259.t12.CDS3 | 723092 | 723591 |
| chr_2 | g4259 | g4259.t12 | exon | g4259.t12.exon4 | 723668 | 723858 |
| chr_2 | g4259 | g4259.t12 | cds | g4259.t12.CDS4 | 723668 | 723858 |
| chr_2 | g4259 | g4259.t12 | exon | g4259.t12.exon5 | 723922 | 724089 |
| chr_2 | g4259 | g4259.t12 | cds | g4259.t12.CDS5 | 723922 | 723994 |
| chr_2 | g4259 | g4259.t12 | exon | g4259.t12.exon6 | 724138 | 724630 |
| chr_2 | g4259 | g4259.t12 | TTS | g4259.t12 | 724624 | 724624 |
Sequences
>g4259.t12 Gene=g4259 Length=1518
ATGGAAGATAAGACGACACTGAAAGATCTAGATTCGTGGATTGAGCAATTGAACGAATGT
AAACAGCTTACCGAGAGTCAAGTTAAAATTCTTTGCGAGAAGGCTAAGGAGATCTTGGCT
AAAGAATCAAATGTGCAAGAAGTAAAATGTCCGGTGACAGTGTGTGGTGATGTTCATGGC
CAATTTCACGATTTGATGGAACTTTTTCGGATAGGAGGTCGATCACCTGATACTAATTAC
TTATTTATGGGCGATTATGTCGACCGTGGCTATTACAGTGTTGAGACAGTCACTCTTCTC
GTTGCACTTAAAGTTCGCTATCGTGAGAGAATTACAATTCTTCGTGGTAATCACGAGTCG
CGACAAATTACGCAAGTTTACGGATTCTATGATGAATGTTTGCGAAAATATGGAAATCCA
AATGTGTGGAAATATTTTACTGACCTATTTGATTATCTACCCCTTACTGCTCTCGTTGAT
GGACAAATATTTTGTTTGCATGGTGGCTTATCGCCATCGATTGACACACTCGATCACATT
AGAGCTCTTGATAGATTACAAGAAGTTCCACATGAAGGACCTATGTGTGATCTATTGTGG
AGTGATCCTGATGACCGAGGTGGATGGGGTATTTCACCTCGTGGAGCAGGATATACTTTC
GGTCAAGACATTTCCGAAATTTTTAATCATACTAATGGATTAACTTTAGTATCTCGCGCT
CATCAGTTAGTTATGGAAGGCTATAATTGGTGTCATGAACGCCACGTTGTCACAATATTC
TCAGCGCCAAACTACTGTTATCGATGCGGAAATCAAGCAGCATTAATGGAATTAGATGAT
TCATTGAAATTTTCATTCCTCCAATTTGATCCAGCACCTCGCCGCGGTGAGCCACATGTC
ACAAGAAGAACTCCTGATTATTTCCTATAAGTTTTTTATTATATATTAACCATCAAACAA
TGAAAAAGAGATAGAGAAAAAAATGAAGGAAAACTCTTAAAGATTGCATATACATACACA
CAACAGTTCATTTCCAGGAAATAATAATGTATGCTATAAAAACAACAAGAAATTACATAC
CAGATAGACATAAATACAATTCATTACTGGGTTTTATGACAGTCTGATATTGAAAACAGT
TTAAACTTAAATATGATTACAAGGAGGAATTTTATCAATGATTTATTGTTGGGTAGTGAA
AAAATTTTTATCTTATTTTATTTGTCAAACAATTTATGTTTTTTTCTTTTTATGTGCCCC
GTATTAATTTTAATGTAGAATTTTAAACAAAAAATGTGTATTCAGAGTAAAAGTAAATAT
CGAGAAAAATGCGAATTATTAAAGAAAATTGATGTTTTTTTAATTATAATATTACACAAA
AGGAACATTTCTTCATTTTCTTCTTCTTCGTTCTACTTTAAATTACATAGTTGTAATAAA
ACATGATATGAAACATTTTTAATCACTTCAAAAAGTGTTGAGATCAAAATAGTTGAAATA
TATTATGGATATAAAAAA
>g4259.t12 Gene=g4259 Length=309
MEDKTTLKDLDSWIEQLNECKQLTESQVKILCEKAKEILAKESNVQEVKCPVTVCGDVHG
QFHDLMELFRIGGRSPDTNYLFMGDYVDRGYYSVETVTLLVALKVRYRERITILRGNHES
RQITQVYGFYDECLRKYGNPNVWKYFTDLFDYLPLTALVDGQIFCLHGGLSPSIDTLDHI
RALDRLQEVPHEGPMCDLLWSDPDDRGGWGISPRGAGYTFGQDISEIFNHTNGLTLVSRA
HQLVMEGYNWCHERHVVTIFSAPNYCYRCGNQAALMELDDSLKFSFLQFDPAPRRGEPHV
TRRTPDYFL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g4259.t12 | CDD | cd07415 | MPP_PP2A_PP4_PP6 | 9 | 293 | 0.0 |
| 12 | g4259.t12 | Gene3D | G3DSA:3.60.21.10 | - | 1 | 309 | 8.7E-134 |
| 2 | g4259.t12 | PANTHER | PTHR45619 | SERINE/THREONINE-PROTEIN PHOSPHATASE PP2A-RELATED | 1 | 309 | 1.7E-205 |
| 3 | g4259.t12 | PANTHER | PTHR45619:SF44 | SERINE/THREONINE-PROTEIN PHOSPHATASE 2A CATALYTIC SUBUNIT BETA ISOFORM | 1 | 309 | 1.7E-205 |
| 10 | g4259.t12 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 51 | 78 | 3.1E-91 |
| 7 | g4259.t12 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 80 | 107 | 3.1E-91 |
| 6 | g4259.t12 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 113 | 137 | 3.1E-91 |
| 4 | g4259.t12 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 148 | 174 | 3.1E-91 |
| 5 | g4259.t12 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 177 | 204 | 3.1E-91 |
| 9 | g4259.t12 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 233 | 253 | 3.1E-91 |
| 8 | g4259.t12 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 255 | 271 | 3.1E-91 |
| 1 | g4259.t12 | Pfam | PF00149 | Calcineurin-like phosphoesterase | 51 | 242 | 1.4E-34 |
| 14 | g4259.t12 | ProSitePatterns | PS00125 | Serine/threonine specific protein phosphatases signature. | 114 | 119 | - |
| 15 | g4259.t12 | SMART | SM00156 | pp2a_7 | 23 | 293 | 8.6E-154 |
| 11 | g4259.t12 | 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
- This transcript has been annotated with K04382 (serine/threonine-protein phosphatase 2A catalytic subunit)
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.
