General information for g8875.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Serine/threonine-protein phosphatase alpha-1 isoform.
Parent gene
- The parent gene g8875 is located on chr_2: 33614312..33615366 (- 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 | g8875 | g8875.t1 | TTS | g8875.t1 | 33612730 | 33612730 |
| chr_2 | g8875 | g8875.t1 | isoform | g8875.t1 | 33612825 | 33615366 |
| chr_2 | g8875 | g8875.t1 | exon | g8875.t1.exon1 | 33612825 | 33612871 |
| chr_2 | g8875 | g8875.t1 | cds | g8875.t1.CDS1 | 33612825 | 33612871 |
| chr_2 | g8875 | g8875.t1 | exon | g8875.t1.exon2 | 33614818 | 33614883 |
| chr_2 | g8875 | g8875.t1 | cds | g8875.t1.CDS2 | 33614818 | 33614883 |
| chr_2 | g8875 | g8875.t1 | exon | g8875.t1.exon3 | 33615003 | 33615150 |
| chr_2 | g8875 | g8875.t1 | cds | g8875.t1.CDS3 | 33615003 | 33615150 |
| chr_2 | g8875 | g8875.t1 | exon | g8875.t1.exon4 | 33615223 | 33615366 |
| chr_2 | g8875 | g8875.t1 | cds | g8875.t1.CDS4 | 33615223 | 33615366 |
| chr_2 | g8875 | g8875.t1 | TSS | g8875.t1 | NA | NA |
Sequences
>g8875.t1 Gene=g8875 Length=405
ATGGAACAAATCAGAAGAATTATGCGCCCAACTGACGTTCCTGATCAGGGTCTATTGTGC
GATCTCCTTTGGTCAGATCCTGACAAAGACACAATGGGTTGGGGTGAGAATGATCGTGGA
GTTAGTTTTACATTTGGAGCAGAGATTGTTGCAAAATTCCTGGCAAAACACGATTTTGAT
CTAATTTGTCGTGCTCATCAAGTAGTAGAAGATGGTTATGAATTCTTTGCAAAACGACAA
CTTGTAACGCTGTTTTCGGCACCAAATTATTGTGGAGAATTTGATAACGCTGGTGCTATG
ATGTCTGTAGATGACACGCTAATGTGCTCGTTCCAGATCTTAAAACCAGCCGATAAACAC
GCAGCATCAAGATTTAGCAGCATCAGCAAGAAAAATAACAAGTGA
>g8875.t1 Gene=g8875 Length=134
MEQIRRIMRPTDVPDQGLLCDLLWSDPDKDTMGWGENDRGVSFTFGAEIVAKFLAKHDFD
LICRAHQVVEDGYEFFAKRQLVTLFSAPNYCGEFDNAGAMMSVDDTLMCSFQILKPADKH
AASRFSSISKKNNK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g8875.t1 | Gene3D | G3DSA:3.60.21.10 | - | 1 | 127 | 0.0e+00 |
| 2 | g8875.t1 | PANTHER | PTHR11668:SF377 | SERINE/THREONINE-PROTEIN PHOSPHATASE PP1-ALPHA CATALYTIC SUBUNIT | 1 | 126 | 0.0e+00 |
| 3 | g8875.t1 | PANTHER | PTHR11668 | SERINE/THREONINE PROTEIN PHOSPHATASE | 1 | 126 | 0.0e+00 |
| 6 | g8875.t1 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 1 | 28 | 0.0e+00 |
| 5 | g8875.t1 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 58 | 78 | 0.0e+00 |
| 4 | g8875.t1 | PRINTS | PR00114 | Serine/threonine phosphatase family signature | 80 | 96 | 0.0e+00 |
| 1 | g8875.t1 | Pfam | PF00149 | Calcineurin-like phosphoesterase | 2 | 68 | 2.6e-06 |
| 8 | g8875.t1 | SMART | SM00156 | pp2a_7 | 1 | 118 | 0.0e+00 |
| 7 | g8875.t1 | SUPERFAMILY | SSF56300 | Metallo-dependent phosphatases | 2 | 119 | 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:0072357 | PTW/PP1 phosphatase complex | CC |
| GO:0016787 | hydrolase activity | MF |
| GO:0000164 | protein phosphatase type 1 complex | CC |
| GO:0004722 | protein serine/threonine phosphatase 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.
