General information for g4259.t4
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.t4 | TSS | g4259.t4 | 719824 | 719824 |
| chr_2 | g4259 | g4259.t4 | isoform | g4259.t4 | 719932 | 723858 |
| chr_2 | g4259 | g4259.t4 | exon | g4259.t4.exon1 | 719932 | 720033 |
| chr_2 | g4259 | g4259.t4 | exon | g4259.t4.exon2 | 722972 | 723028 |
| chr_2 | g4259 | g4259.t4 | cds | g4259.t4.CDS1 | 723016 | 723028 |
| chr_2 | g4259 | g4259.t4 | exon | g4259.t4.exon3 | 723092 | 723591 |
| chr_2 | g4259 | g4259.t4 | cds | g4259.t4.CDS2 | 723092 | 723591 |
| chr_2 | g4259 | g4259.t4 | exon | g4259.t4.exon4 | 723668 | 723858 |
| chr_2 | g4259 | g4259.t4 | cds | g4259.t4.CDS3 | 723668 | 723856 |
| chr_2 | g4259 | g4259.t4 | TTS | g4259.t4 | 724624 | 724624 |
Sequences
>g4259.t4 Gene=g4259 Length=850
ATGGAAGATAAGACGACACTGAAAGATCTAGATTCGTGGATTGAGCAATTGAACGAATGT
AAACAGCTTACCGAGAGTCAAGTTAAAATTCTTTGCGAGAAGGCTAAGGAGATCTTGGCT
AAAGAATCAAATGTGCAAGAAGTAAAATGTCCGGTGACAGTGATGTTCATGGCCAATTTC
ACGATTTGATGGAACTTTTTCGGATAGGAGGTCGATCACCTGATACTAATTACTTATTTA
TGGGCGATTATGTCGACCGTGGCTATTACAGTGTTGAGACAGTCACTCTTCTCGTTGCAC
TTAAAGTTCGCTATCGTGAGAGAATTACAATTCTTCGTGGTAATCACGAGTCGCGACAAA
TTACGCAAGTTTACGGATTCTATGATGAATGTTTGCGAAAATATGGAAATCCAAATGTGT
GGAAATATTTTACTGACCTATTTGATTATCTACCCCTTACTGCTCTCGTTGATGGACAAA
TATTTTGTTTGCATGGTGGCTTATCGCCATCGATTGACACACTCGATCACATTAGAGCTC
TTGATAGATTACAAGAAGTTCCACATGAAGGACCTATGTGTGATCTATTGTGGAGTGATC
CTGATGACCGAGGTGGATGGGGTATTTCACCTCGTGGAGCAGGATATACTTTCGGTCAAG
ACATTTCCGAAATTTTTAATCATACTAATGGATTAACTTTAGTATCTCGCGCTCATCAGT
TAGTTATGGAAGGCTATAATTGGTGTCATGAACGCCACGTTGTCACAATATTCTCAGCGC
CAAACTACTGTTATCGATGCGGAAATCAAGCAGCATTAATGGAATTAGATGATTCATTGA
AATTTTCATT
>g4259.t4 Gene=g4259 Length=234
MSGDSDVHGQFHDLMELFRIGGRSPDTNYLFMGDYVDRGYYSVETVTLLVALKVRYRERI
TILRGNHESRQITQVYGFYDECLRKYGNPNVWKYFTDLFDYLPLTALVDGQIFCLHGGLS
PSIDTLDHIRALDRLQEVPHEGPMCDLLWSDPDDRGGWGISPRGAGYTFGQDISEIFNHT
NGLTLVSRAHQLVMEGYNWCHERHVVTIFSAPNYCYRCGNQAALMELDDSLKFS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g4259.t4 | CDD | cd07415 | MPP_PP2A_PP4_PP6 | 6 | 234 | 0.0 |
| 11 | g4259.t4 | Gene3D | G3DSA:3.60.21.10 | - | 5 | 234 | 1.3E-110 |
| 2 | g4259.t4 | PANTHER | PTHR45619 | SERINE/THREONINE-PROTEIN PHOSPHATASE PP2A-RELATED | 5 | 234 | 2.7E-156 |
| 3 | g4259.t4 | PANTHER | PTHR45619:SF44 | SERINE/THREONINE-PROTEIN PHOSPHATASE 2A CATALYTIC SUBUNIT BETA ISOFORM | 5 | 234 | 2.7E-156 |
| 9 | g4259.t4 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 29 | 56 | 1.4E-75 |
| 8 | g4259.t4 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 62 | 86 | 1.4E-75 |
| 5 | g4259.t4 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 97 | 123 | 1.4E-75 |
| 7 | g4259.t4 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 126 | 153 | 1.4E-75 |
| 4 | g4259.t4 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 182 | 202 | 1.4E-75 |
| 6 | g4259.t4 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 204 | 220 | 1.4E-75 |
| 1 | g4259.t4 | Pfam | PF00149 | Calcineurin-like phosphoesterase | 5 | 191 | 1.7E-32 |
| 13 | g4259.t4 | ProSitePatterns | PS00125 | Serine/threonine specific protein phosphatases signature. | 63 | 68 | - |
| 14 | g4259.t4 | SMART | SM00156 | pp2a_7 | 1 | 234 | 3.5E-112 |
| 10 | g4259.t4 | SUPERFAMILY | SSF56300 | Metallo-dependent phosphatases | 5 | 231 | 2.81E-97 |
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 gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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. There were no conditions that were differentially expressed