General information for g2965.t3
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 epsilon 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.t3 | TTS | g2965.t3 | 21611568 | 21611568 |
| chr_3 | g2965 | g2965.t3 | isoform | g2965.t3 | 21611653 | 21612777 |
| chr_3 | g2965 | g2965.t3 | exon | g2965.t3.exon1 | 21611653 | 21611920 |
| chr_3 | g2965 | g2965.t3 | cds | g2965.t3.CDS1 | 21611653 | 21611920 |
| chr_3 | g2965 | g2965.t3 | exon | g2965.t3.exon2 | 21612008 | 21612237 |
| chr_3 | g2965 | g2965.t3 | cds | g2965.t3.CDS2 | 21612008 | 21612237 |
| chr_3 | g2965 | g2965.t3 | exon | g2965.t3.exon3 | 21612376 | 21612709 |
| chr_3 | g2965 | g2965.t3 | cds | g2965.t3.CDS3 | 21612376 | 21612630 |
| chr_3 | g2965 | g2965.t3 | exon | g2965.t3.exon4 | 21612773 | 21612777 |
| chr_3 | g2965 | g2965.t3 | TSS | g2965.t3 | NA | NA |
Sequences
>g2965.t3 Gene=g2965 Length=837
GGAAGCATCATTAATGGTTTTGCATTGCCACTTAAAGCTGAACATAAACAATTTTTAGTA
AAAGTTTTATTGCCATTGCATAAAATGAAGTGTCTATCATTGTATCATGCTCAGTTGGCA
TATTGTGTTGTTCAGTTTTTAGAAAAAGATGCATCCTTAACAGAGCCAGTTGTTCGCGGA
TTACTTAAATACTGGCCGAAAACATGTTCGCAAAAAGAGGCCATGTTTCTTGGCGAAATC
GAAGAAATATTGGATGTGATTGAGCCACCGCAGTTTGTTAAAATTATGGAACCATTGTTT
AAGCAGATTGCAAAATGTGTATCCAGTCCTCATTTTCAGGTGGCTGAACGTGCATTGTAT
TTTTGGAATAATGAATATGCGATGTCATTAATTGAGGATAACAACGCTGTCATAATGCCC
ATCATGTTTCCAGCTTTGTATCGCATCAGCAAGGAGCATTGGAATCAGACAATTGTCGCG
TTAGTATACAACGTTCTCAAAACTTTTATGGAAATGAATTCGAAATTGTTTGATGAGTTG
ACAGCTAGCTATAAAGCAGAACGACAAAAAGAGAAAAAAAGAGAACGTGAACGTGAAGAA
TTGTGGAAGCGCCTGCATGAATTAGCAGACGAGATTCAAAAAGGTGATAAGCCACATGGA
ACGATAGGTACACAAGCATTGTCAACATCAACGCAAGGCGATGCTGCTAGTAATCAATTG
AACAGCACTGCAACAAATAATCAGATCAACCAGGCGACAGCTCAAAGCCATTCATCATCT
ATAAATACACAAATGAATTCATTGTCAATAAGTGCTGCTGGTTCCATGTCCAAGTGA
>g2965.t3 Gene=g2965 Length=250
MKCLSLYHAQLAYCVVQFLEKDASLTEPVVRGLLKYWPKTCSQKEAMFLGEIEEILDVIE
PPQFVKIMEPLFKQIAKCVSSPHFQVAERALYFWNNEYAMSLIEDNNAVIMPIMFPALYR
ISKEHWNQTIVALVYNVLKTFMEMNSKLFDELTASYKAERQKEKKREREREELWKRLHEL
ADEIQKGDKPHGTIGTQALSTSTQGDAASNQLNSTATNNQINQATAQSHSSSINTQMNSL
SISAAGSMSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g2965.t3 | Gene3D | G3DSA:1.25.10.10 | - | 1 | 180 | 8.4E-85 |
| 5 | g2965.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 200 | 250 | - |
| 2 | g2965.t3 | PANTHER | PTHR10257:SF6 | SERINE/THREONINE-PROTEIN PHOSPHATASE 2A 56 KDA REGULATORY SUBUNIT ALPHA ISOFORM | 2 | 191 | 2.3E-107 |
| 3 | g2965.t3 | PANTHER | PTHR10257 | SERINE/THREONINE PROTEIN PHOSPHATASE 2A PP2A REGULATORY SUBUNIT B | 2 | 191 | 2.3E-107 |
| 1 | g2965.t3 | Pfam | PF01603 | Protein phosphatase 2A regulatory B subunit (B56 family) | 2 | 181 | 1.8E-78 |
| 4 | g2965.t3 | SUPERFAMILY | SSF48371 | ARM repeat | 2 | 176 | 6.33E-68 |
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.
