Gene loci information

Transcript annotation

  • This transcript has been annotated as Protein phosphatase PP2A 55 kDa regulatory subunit.

Parent gene

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 g3683 g3683.t4 isoform g3683.t4 27398358 27399159
chr_3 g3683 g3683.t4 exon g3683.t4.exon1 27398358 27399159
chr_3 g3683 g3683.t4 cds g3683.t4.CDS1 27398667 27399158
chr_3 g3683 g3683.t4 TTS g3683.t4 27400047 27400047
chr_3 g3683 g3683.t4 TSS g3683.t4 NA NA

Sequences

>g3683.t4 Gene=g3683 Length=802
CGGGATCCTAGTTCTAAAGCCGCTAACCCTCGTCGAGGAGAATTCAACGTATATAGTACT
TTTCAGTCACATGAGCCAGAATTTGACTATCTGAAGTCACTCGAGATTGAAGAGAAAATT
AACAAAATCAGATGGTTAAAACGTAAGAACCAAGCGCACTTCCTGCTATCTACGAACGAT
AAGACAATTAAGCTCTGGAAGGTTTCGGAGCGTGACAAATGCGTAGAGGGCTATAATACA
AAAGAAGAGAGCGGTAGGATTTTGGAACCAAAACAAATAACTTCTCTACGTGTGCCATCA
ATAAAACCGATGGATCTGATGGTTGAAGCAACTCCACGCCGTGTATTCGCAAATGCTCAC
ACCTATCATATTAATTCAATTTCTGTCAATTCTGATCAAGAGACATATCTCTCGGCAGAT
GACTTGCGAATTAACTTGTGGAATTTAGAAATTACCAATCAATCTTTTAATATCGTCGAT
ATCAAACCATCAAATATGGAGGAATTGACAGAAGTTATAACAGCAGCAGAGTTTCATCCT
CGCGACTGCAATTTGTTTGTATATTCAAGTAGTAAAGGTACAATACGCCTCTGCGACATG
CGTTCAGCGGCACTATGCGATCAACATGCAAAACTTTTTGAGGAGCCTGAAGACAACGAG
ATGAATAACAAGAGCTTCTTTCGTGAGATTATCAGTTCTATAAGTGATGTAAAGATGAGC
AATTCTGGACGTTATATGATGTCAAGAGACTATTTAAGTATTAAAATATGGGATTTGCAT
ATGGAAACTAAACCAGTTGAGA

>g3683.t4 Gene=g3683 Length=164
MDLMVEATPRRVFANAHTYHINSISVNSDQETYLSADDLRINLWNLEITNQSFNIVDIKP
SNMEELTEVITAAEFHPRDCNLFVYSSSKGTIRLCDMRSAALCDQHAKLFEEPEDNEMNN
KSFFREIISSISDVKMSNSGRYMMSRDYLSIKIWDLHMETKPVE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g3683.t4 Gene3D G3DSA:2.130.10.10 - 1 164 6.3E-16
1 g3683.t4 PANTHER PTHR11871 PROTEIN PHOSPHATASE PP2A REGULATORY SUBUNIT B 1 164 3.4E-95
2 g3683.t4 PANTHER PTHR11871:SF6 SERINE/THREONINE-PROTEIN PHOSPHATASE 2A 55 KDA REGULATORY SUBUNIT B DELTA ISOFORM 1 164 3.4E-95
5 g3683.t4 PRINTS PR00600 Protein phosphatase PP2A 55kDa regulatory subunit signature 17 44 6.6E-58
6 g3683.t4 PRINTS PR00600 Protein phosphatase PP2A 55kDa regulatory subunit signature 45 72 6.6E-58
4 g3683.t4 PRINTS PR00600 Protein phosphatase PP2A 55kDa regulatory subunit signature 73 101 6.6E-58
3 g3683.t4 PRINTS PR00600 Protein phosphatase PP2A 55kDa regulatory subunit signature 132 159 6.6E-58
8 g3683.t4 ProSitePatterns PS01025 Protein phosphatase 2A regulatory subunit PR55 signature 2. 15 29 -
9 g3683.t4 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 32 46 -
7 g3683.t4 SUPERFAMILY SSF50978 WD40 repeat-like 9 158 1.94E-15

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:0005515 protein binding MF
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.

Raw TPM values