General information for g3200.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Serine/threonine-protein phosphatase 4 catalytic subunit.
Parent gene
- The parent gene g3200 is located on chr_3: 23620525..23621663 (+ 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_3 | g3200 | g3200.t6 | TSS | g3200.t6 | 23619663 | 23619663 |
| chr_3 | g3200 | g3200.t6 | isoform | g3200.t6 | 23620525 | 23621663 |
| chr_3 | g3200 | g3200.t6 | exon | g3200.t6.exon1 | 23620525 | 23621663 |
| chr_3 | g3200 | g3200.t6 | cds | g3200.t6.CDS1 | 23620795 | 23621145 |
| chr_3 | g3200 | g3200.t6 | TTS | g3200.t6 | 23621665 | 23621665 |
Sequences
>g3200.t6 Gene=g3200 Length=1139
GTTCGATATCCAGATCGTATAACGTTAATTCGTGGCAATCACGAGTCACGTCAAATTACT
CAAGTTTATGGTTTCTATGACGAATGTCTTCGAAAATATGGCTCAATTACAGTTTGGCGC
TATTGTACAGAAGTCTTTGACTATCTTAGTCTTTCGGCTATCATCGATGGCAAAATTTTC
TGTGTACATGGCGGTTTGAGTCCTTCAATTCAGTATTTAGATCAAATTCGATCGATTGAT
AGAAAACAGGAAGTTCCACATGACGGCCCTATGTGTGATTTATTATGGAGTGATCCAGAA
GATACACATGGTTGGGGTGTTTCACCTCGCGGCGCTGGATATTTATTTGGTTCTGATGTA
GTCGCACAATTTAATGCGGCAAACGATATTGAGATGATTTGTCGAGCACATCAACTTGTA
ATGGAAGGTTACAAATGGCATTTTAATGAGACTGTCTTAACAGTGTGGTCAGCGCCTAAT
TATTGCTATCGTTGTGGAAATGTCGCTGCTATACTAGAACTGAATGAAAATCTTCAACGC
GATTTTACTATATTTGAAGCGGCTCCACAAGAAAGTCGAGGGATTCCGTTGAAAAAACCC
CAAGCTGACTACTTTTTATAAACAATCAACTACTCAACGTTTCGCGTATATACACAAACA
TATTTACACATACACACCACACACTTTTATGATTTACTAAAGTGACGACGAATATAAGTT
CTTTTTTTCATGTCATTATCGTCCTTTATTGTTCTCTCCCTCACTTATTTTCTGTAATTT
AAATCAATTTATTAAATATAAAAAAATTAGATTACGTAAAACAAATTATTTAGTAATTTA
CAATATGTGCGCATGAATGATGCGAAAAAAATACAAGAACATAGCCAATTGTTTATAGTG
TCCCAAATTAAAGATATTTATCTTTGAAACAAAATTCTAGAACGAGTGTTAAAAAAAATT
TTTTAGTTTATAAGTTTTGCTTCATCAACTTAATATGTTCATCATTTTTATTATTTTAAT
TTCCTTTTTCTACTATCACCATCAATGATTTATACTTAACAATATATAAATGATAACGAA
TATTATAAAAGAAAAATAAAAATACGACAAGAAATAAAGTGAAAAATTTTTAGAAAAAA
>g3200.t6 Gene=g3200 Length=116
MCDLLWSDPEDTHGWGVSPRGAGYLFGSDVVAQFNAANDIEMICRAHQLVMEGYKWHFNE
TVLTVWSAPNYCYRCGNVAAILELNENLQRDFTIFEAAPQESRGIPLKKPQADYFL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g3200.t6 | Gene3D | G3DSA:3.60.21.10 | - | 1 | 116 | 0.0e+00 |
| 1 | g3200.t6 | PANTHER | PTHR45619 | SERINE/THREONINE-PROTEIN PHOSPHATASE PP2A-RELATED | 1 | 116 | 0.0e+00 |
| 2 | g3200.t6 | PANTHER | PTHR45619:SF8 | SERINE/THREONINE-PROTEIN PHOSPHATASE 4 CATALYTIC SUBUNIT | 1 | 116 | 0.0e+00 |
| 4 | g3200.t6 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 39 | 59 | 0.0e+00 |
| 3 | g3200.t6 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 61 | 77 | 0.0e+00 |
| 6 | g3200.t6 | SMART | SM00156 | pp2a_7 | 1 | 99 | 4.1e-05 |
| 5 | g3200.t6 | SUPERFAMILY | SSF56300 | Metallo-dependent phosphatases | 1 | 103 | 0.0e+00 |
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.
