General information for g12696.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Serine/threonine-protein phosphatase PP2A 65 kDa regulatory subunit.
Parent gene
- The parent gene g12696 is located on chr_1: 25323738..25325043 (- 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_1 | g12696 | g12696.t4 | TTS | g12696.t4 | 25322138 | 25322138 |
| chr_1 | g12696 | g12696.t4 | isoform | g12696.t4 | 25322991 | 25324690 |
| chr_1 | g12696 | g12696.t4 | exon | g12696.t4.exon1 | 25322991 | 25323745 |
| chr_1 | g12696 | g12696.t4 | cds | g12696.t4.CDS1 | 25322993 | 25323745 |
| chr_1 | g12696 | g12696.t4 | exon | g12696.t4.exon2 | 25323805 | 25324298 |
| chr_1 | g12696 | g12696.t4 | cds | g12696.t4.CDS2 | 25323805 | 25324298 |
| chr_1 | g12696 | g12696.t4 | exon | g12696.t4.exon3 | 25324360 | 25324513 |
| chr_1 | g12696 | g12696.t4 | cds | g12696.t4.CDS3 | 25324360 | 25324513 |
| chr_1 | g12696 | g12696.t4 | exon | g12696.t4.exon4 | 25324613 | 25324690 |
| chr_1 | g12696 | g12696.t4 | cds | g12696.t4.CDS4 | 25324613 | 25324690 |
| chr_1 | g12696 | g12696.t4 | TSS | g12696.t4 | 25324906 | 25324906 |
Sequences
>g12696.t4 Gene=g12696 Length=1481
ATGGCGGACCAAAAAAGCGATGATTCACTTTATCCTATTGCTGTTCTAATTGATGAATTA
AAGAATGAAGATATTCAGCTCCGATTAAACTCGATTAAAAAATTGTCAACAATTGCATTA
GCTCTTGGTGAAGAGAGGACTAGAACTGAGTTGGTTCCGTTTTTGACAGAGACGATTTAT
GATGAAGATGAAGTTTTACTTGCACTTGCCGAGCAGCTGGGAACTTTCACACATCTTGTT
GGTGGACCAGATTACGCGATGTATTTAATTCCTCCTTTAGAGAGTTTGGCTACTGTTGAA
GAAACAGTCGTTCGTGATAAGGCAGTTGAATCACTTCGTAATGTTGCTGCACAACATAGT
GCTCACGACTTGGAAGTTCATGTTATTCCAACACTTCAACGTTTGGTTTCTGGCGAATGG
TTTACATCGCGCACATCAGCATGTGGATTATTTTCTGTTTGCTATCCTCGCGTGCCAGCA
TCAGTCAAGGCTGAATTGCGCAATTTATTTAGACAATTGTGTCAAGATGAGACTCCTATG
GTTCGTCGTGCGGCTGCAGGCAAATTAGGAGAGTTTGCTAAAGTGGTGGAAGTTGAATTT
CTCAAGTCAGATTTGATTCCAATGTTTGTTCAATTGGCTCAGGATGATCAAGATTCTGTA
CGCTTACTTGCTGTAGAGGCATGTGTTAGTATTGCTCAACTTTTACAACAAGAGGATGTT
GAAACGTTGGTGATGCCAACTCTTCGTCAATGTGCTAGCGATTCGTCCTGGCGTGTTCGA
TATGTTGTGGCTGAGAAATTTGTTGATCTACAAAAAGCTGTTGGTCCAGAAATTACAAAA
ACTGATCTTGTTCCAGCTTTTCAATATTTACTTAAAGATACAGAGGCCGAAGTTCGTGCT
TCTGCTGCAACCAAAGTCAAAGACTTTTGTGCAAACTTAGATCCAACAAATCGCGAACAA
ATTATAATGACGTCAATATTGCCATACATCAAGGAATTAGTATCTGATGCAAATCAACAC
GTCAAATCGGCACTCGCTTCAGTCATTATGGGATTAAGTCCAATATTTGGGCGAAACAAC
ACGATCGAACATTTGCTTCCTCTGTTTTTGACTCAATTGACTGATGAATGGCCAGAAGTT
CGTCTCAACATTATATCCACATTAGATTGCATAAATGATGTTATTGGAATTCAACAGCTC
TCACAGTCTCTTTTGCCAGCAATTGTGGAACTTGCAGAAGATTCCAAATGGCGGGTTCGA
TTAGCTATTATCGAATATATGCCATTATTGGCAGGTCAACTTGGTCAAGATTACTTTAAT
CAGAAATTAAGAGATTTGTGCTTCAATTGGCTTAATGATCACGTTTATGCTATCCGCGAG
GCTGCCACATTAAATATGAAAAAGATTGTTCAGACATTCGGCACACAGTGGGCAGAAACA
AATATTATTCCACAGATTTTGGTCATGTGCAAAAACAATAA
>g12696.t4 Gene=g12696 Length=493
MADQKSDDSLYPIAVLIDELKNEDIQLRLNSIKKLSTIALALGEERTRTELVPFLTETIY
DEDEVLLALAEQLGTFTHLVGGPDYAMYLIPPLESLATVEETVVRDKAVESLRNVAAQHS
AHDLEVHVIPTLQRLVSGEWFTSRTSACGLFSVCYPRVPASVKAELRNLFRQLCQDETPM
VRRAAAGKLGEFAKVVEVEFLKSDLIPMFVQLAQDDQDSVRLLAVEACVSIAQLLQQEDV
ETLVMPTLRQCASDSSWRVRYVVAEKFVDLQKAVGPEITKTDLVPAFQYLLKDTEAEVRA
SAATKVKDFCANLDPTNREQIIMTSILPYIKELVSDANQHVKSALASVIMGLSPIFGRNN
TIEHLLPLFLTQLTDEWPEVRLNIISTLDCINDVIGIQQLSQSLLPAIVELAEDSKWRVR
LAIIEYMPLLAGQLGQDYFNQKLRDLCFNWLNDHVYAIREAATLNMKKIVQTFGTQWAET
NIIPQILVMCKNN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g12696.t4 | Gene3D | G3DSA:1.25.10.10 | - | 2 | 493 | 0.000 |
| 3 | g12696.t4 | PANTHER | PTHR10648 | SERINE/THREONINE-PROTEIN PHOSPHATASE PP2A 65 KDA REGULATORY SUBUNIT | 2 | 491 | 0.000 |
| 4 | g12696.t4 | PANTHER | PTHR10648:SF9 | SERINE/THREONINE-PROTEIN PHOSPHATASE 2A 65 KDA REGULATORY SUBUNIT A BETA ISOFORM | 2 | 491 | 0.000 |
| 2 | g12696.t4 | Pfam | PF13646 | HEAT repeats | 169 | 264 | 0.000 |
| 1 | g12696.t4 | Pfam | PF13646 | HEAT repeats | 366 | 466 | 0.000 |
| 12 | g12696.t4 | ProSiteProfiles | PS50077 | HEAT repeat profile. | 12 | 50 | 9.506 |
| 10 | g12696.t4 | ProSiteProfiles | PS50077 | HEAT repeat profile. | 166 | 204 | 10.658 |
| 11 | g12696.t4 | ProSiteProfiles | PS50077 | HEAT repeat profile. | 205 | 243 | 13.608 |
| 9 | g12696.t4 | ProSiteProfiles | PS50077 | HEAT repeat profile. | 244 | 282 | 11.950 |
| 13 | g12696.t4 | ProSiteProfiles | PS50077 | HEAT repeat profile. | 283 | 320 | 10.602 |
| 14 | g12696.t4 | ProSiteProfiles | PS50077 | HEAT repeat profile. | 326 | 364 | 11.163 |
| 7 | g12696.t4 | ProSiteProfiles | PS50077 | HEAT repeat profile. | 365 | 403 | 11.135 |
| 8 | g12696.t4 | ProSiteProfiles | PS50077 | HEAT repeat profile. | 404 | 442 | 12.850 |
| 5 | g12696.t4 | SUPERFAMILY | SSF48371 | ARM repeat | 8 | 492 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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. There were no conditions that were differentially expressed