General information for g2965.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform.
Parent gene
- The parent gene g2965 is located on chr_3: 21613810..21616465 (- 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 | g2965 | g2965.t6 | TTS | g2965.t6 | 21612012 | 21612012 |
| chr_3 | g2965 | g2965.t6 | isoform | g2965.t6 | 21612780 | 21616465 |
| chr_3 | g2965 | g2965.t6 | exon | g2965.t6.exon1 | 21612780 | 21612963 |
| chr_3 | g2965 | g2965.t6 | cds | g2965.t6.CDS1 | 21612781 | 21612963 |
| chr_3 | g2965 | g2965.t6 | exon | g2965.t6.exon2 | 21613034 | 21613228 |
| chr_3 | g2965 | g2965.t6 | cds | g2965.t6.CDS2 | 21613034 | 21613228 |
| chr_3 | g2965 | g2965.t6 | exon | g2965.t6.exon3 | 21613341 | 21613540 |
| chr_3 | g2965 | g2965.t6 | cds | g2965.t6.CDS3 | 21613341 | 21613540 |
| chr_3 | g2965 | g2965.t6 | exon | g2965.t6.exon4 | 21613672 | 21614008 |
| chr_3 | g2965 | g2965.t6 | cds | g2965.t6.CDS4 | 21613672 | 21613810 |
| chr_3 | g2965 | g2965.t6 | exon | g2965.t6.exon5 | 21616166 | 21616465 |
| chr_3 | g2965 | g2965.t6 | TSS | g2965.t6 | 21616565 | 21616565 |
Sequences
>g2965.t6 Gene=g2965 Length=1216
ACAATATATTAAGGATAAAGAGATGATAGTTAAAAGGAGTGTGATTGAATAAATGTGAAA
TAAAGCATAGAAAAGTGTAAAAAGAGCCAAATTTTGAATTCAAGCTAGTTAAGTGTCAAA
AAAATATGTGGGACTGAAAAAGAGTAATTGTGTGACATGAAAAATTGTAGTTTGTGGATT
TAAACAAAAATTCCATCATCAACAACTACTTGGAATAGTTAATATTGTTATAAATCCCAC
CAATAATTAAGTTAAGTGAGAATTGTGCACCTAAATTAAGGATTTTAAAGAAAATTATCG
CAACTATTATCATCATCATTATAATTTTGGTGGAATTGATAAAATATACAGACAGCTAAG
GCAACATCACTCAATAATAAACACTTTAAATAAGAAGCAAAAACAAGTGTTGAAATAAAT
TTTAAAAAAATACTATTCAATTACGTCCAGTATAAATCAGAACATATAGAAGAACCTATA
TAAATAATTACATAGATAATGTCGTCAGGCACATTTGTGGATAGGATAGATCCTTTTGCT
AAGCGCTCTTTAAAGAAGAAAAGTCGCAAGTCTCAGGGCTCATCACGGTATCGAAATTCT
CAAGATGTAGAACTACAACAATTGCCTCAACTAAAGGTGGATCTTTCGAGTATGGAGCAA
GAAGAACTCTTCATACGGAAATTGAGACAATGCTGCGTATCTTTCGATTTTATGGATCCA
GTATCGGATTTGAAAGGAAAAGAAATTAAACGTGCTGCACTCAACGATCTTTCTGCATAC
ATTACGCATGGTCGTGGTGTTCTTACAGAAGCAGTATATCCAGAGATTATCAGAATGATT
TCTGTAAATCTGTTTCGAACATTGCCACCCAGTGAAAATCCAGACTTCGATCCTGAAGAA
GATGATCCAACTTTGGAGGCTTCGTGGCCACACCTACAACTAGTTTATGAAGTATTCTTA
CGCTTCCTGGAATCTTCAGATTTTCAGGCTACGATTGGAAAGAAAGTTATTGACCAAAAA
TTTGTTCTACAGTTGCTTGAACTCTTTGACTCAGAGGATCCACGAGAGCGTGATTTCTTA
AAAACAGTGCTTCATCGTATTTATGGAAAATTCTTAGGCCTTCGCGCCTTCATACGAAAA
CAAATTAATAATATTTTCCTACGATTTATATATGAGACGGAGCATTTTAATGGTGTTGGT
GAACTGTTAGAAATTT
>g2965.t6 Gene=g2965 Length=239
MSSGTFVDRIDPFAKRSLKKKSRKSQGSSRYRNSQDVELQQLPQLKVDLSSMEQEELFIR
KLRQCCVSFDFMDPVSDLKGKEIKRAALNDLSAYITHGRGVLTEAVYPEIIRMISVNLFR
TLPPSENPDFDPEEDDPTLEASWPHLQLVYEVFLRFLESSDFQATIGKKVIDQKFVLQLL
ELFDSEDPRERDFLKTVLHRIYGKFLGLRAFIRKQINNIFLRFIYETEHFNGVGELLEI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2965.t6 | Gene3D | G3DSA:1.25.10.10 | - | 51 | 239 | 0 |
| 2 | g2965.t6 | PANTHER | PTHR10257:SF5 | SERINE/THREONINE PROTEIN PHOSPHATASE 2A REGULATORY SUBUNIT | 1 | 239 | 0 |
| 3 | g2965.t6 | PANTHER | PTHR10257 | SERINE/THREONINE PROTEIN PHOSPHATASE 2A PP2A REGULATORY SUBUNIT B | 1 | 239 | 0 |
| 1 | g2965.t6 | Pfam | PF01603 | Protein phosphatase 2A regulatory B subunit (B56 family) | 42 | 239 | 0 |
| 4 | g2965.t6 | SUPERFAMILY | SSF48371 | ARM repeat | 55 | 239 | 0 |
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:0007165 | signal transduction | BP |
| GO:0019888 | protein phosphatase regulator activity | MF |
| GO:0000159 | protein phosphatase type 2A complex | CC |
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.
