General information for g4259.t16
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.t16 | isoform | g4259.t16 | 723029 | 724392 |
| chr_2 | g4259 | g4259.t16 | exon | g4259.t16.exon1 | 723029 | 723591 |
| chr_2 | g4259 | g4259.t16 | cds | g4259.t16.CDS1 | 723121 | 723591 |
| chr_2 | g4259 | g4259.t16 | exon | g4259.t16.exon2 | 723668 | 724392 |
| chr_2 | g4259 | g4259.t16 | cds | g4259.t16.CDS2 | 723668 | 723862 |
| chr_2 | g4259 | g4259.t16 | TTS | g4259.t16 | 724624 | 724624 |
| chr_2 | g4259 | g4259.t16 | TSS | g4259.t16 | NA | NA |
Sequences
>g4259.t16 Gene=g4259 Length=1288
GTGTGTGGTAAGCTAAATGACTTATTTAATTTTGTTGATACAATTTTAAAACTATTTTTT
AAGGTGATGTTCATGGCCAATTTCACGATTTGATGGAACTTTTTCGGATAGGAGGTCGAT
CACCTGATACTAATTACTTATTTATGGGCGATTATGTCGACCGTGGCTATTACAGTGTTG
AGACAGTCACTCTTCTCGTTGCACTTAAAGTTCGCTATCGTGAGAGAATTACAATTCTTC
GTGGTAATCACGAGTCGCGACAAATTACGCAAGTTTACGGATTCTATGATGAATGTTTGC
GAAAATATGGAAATCCAAATGTGTGGAAATATTTTACTGACCTATTTGATTATCTACCCC
TTACTGCTCTCGTTGATGGACAAATATTTTGTTTGCATGGTGGCTTATCGCCATCGATTG
ACACACTCGATCACATTAGAGCTCTTGATAGATTACAAGAAGTTCCACATGAAGGACCTA
TGTGTGATCTATTGTGGAGTGATCCTGATGACCGAGGTGGATGGGGTATTTCACCTCGTG
GAGCAGGATATACTTTCGGTCAAGACATTTCCGAAATTTTTAATCATACTAATGGATTAA
CTTTAGTATCTCGCGCTCATCAGTTAGTTATGGAAGGCTATAATTGGTGTCATGAACGCC
ACGTTGTCACAATATTCTCAGCGCCAAACTACTGTTATCGATGCGGAAATCAAGCAGCAT
TAATGGAATTAGATGATTCATTGAAATTTTCATTGTAAGTTTATTTTTCAAAATTGACAT
TTCAAAAATTCAAATTTTTATATAAAATAATTTACAGCCTCCAATTTGATCCAGCACCTC
GCCGCGGTGAGCCACATGTCACAAGAAGAACTCCTGATTATTTCCTATAAGTTTTTTATT
ATATATTAACCATCAAACAATGAAAAAGAGATAGAGAAAAAAATGAAGGAAAACTCTTAA
AGATTGCATATACATACACACAACAGTTAGAACACTACCTATTCTTTATAAAAATTCGCA
TATTTTTAATTAGGTTCATTTCCAGGAAATAATAATGTATGCTATAAAAACAACAAGAAA
TTACATACCAGATAGACATAAATACAATTCATTACTGGGTTTTATGACAGTCTGATATTG
AAAACAGTTTAAACTTAAATATGATTACAAGGAGGAATTTTATCAATGATTTATTGTTGG
GTAGTGAAAAAATTTTTATCTTATTTTATTTGTCAAACAATTTATGTTTTTTTCTTTTTA
TGTGCCCCGTATTAATTTTAATGTAGAA
>g4259.t16 Gene=g4259 Length=221
MELFRIGGRSPDTNYLFMGDYVDRGYYSVETVTLLVALKVRYRERITILRGNHESRQITQ
VYGFYDECLRKYGNPNVWKYFTDLFDYLPLTALVDGQIFCLHGGLSPSIDTLDHIRALDR
LQEVPHEGPMCDLLWSDPDDRGGWGISPRGAGYTFGQDISEIFNHTNGLTLVSRAHQLVM
EGYNWCHERHVVTIFSAPNYCYRCGNQAALMELDDSLKFSL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g4259.t16 | CDD | cd07415 | MPP_PP2A_PP4_PP6 | 1 | 220 | 1.0025E-178 |
| 11 | g4259.t16 | Gene3D | G3DSA:3.60.21.10 | - | 1 | 220 | 1.0E-102 |
| 2 | g4259.t16 | PANTHER | PTHR45619 | SERINE/THREONINE-PROTEIN PHOSPHATASE PP2A-RELATED | 1 | 220 | 4.9E-149 |
| 3 | g4259.t16 | PANTHER | PTHR45619:SF44 | SERINE/THREONINE-PROTEIN PHOSPHATASE 2A CATALYTIC SUBUNIT BETA ISOFORM | 1 | 220 | 4.9E-149 |
| 5 | g4259.t16 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 15 | 42 | 1.2E-75 |
| 8 | g4259.t16 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 48 | 72 | 1.2E-75 |
| 4 | g4259.t16 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 83 | 109 | 1.2E-75 |
| 7 | g4259.t16 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 112 | 139 | 1.2E-75 |
| 9 | g4259.t16 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 168 | 188 | 1.2E-75 |
| 6 | g4259.t16 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 190 | 206 | 1.2E-75 |
| 1 | g4259.t16 | Pfam | PF00149 | Calcineurin-like phosphoesterase | 10 | 177 | 1.4E-27 |
| 13 | g4259.t16 | ProSitePatterns | PS00125 | Serine/threonine specific protein phosphatases signature. | 49 | 54 | - |
| 14 | g4259.t16 | SMART | SM00156 | pp2a_7 | 1 | 220 | 9.1E-99 |
| 10 | g4259.t16 | SUPERFAMILY | SSF56300 | Metallo-dependent phosphatases | 1 | 219 | 2.53E-90 |
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.
