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.t1 TSS g3683.t1 27397287 27397287
chr_3 g3683 g3683.t1 isoform g3683.t1 27397427 27399616
chr_3 g3683 g3683.t1 exon g3683.t1.exon1 27397427 27397436
chr_3 g3683 g3683.t1 cds g3683.t1.CDS1 27397427 27397436
chr_3 g3683 g3683.t1 exon g3683.t1.exon2 27398147 27398298
chr_3 g3683 g3683.t1 cds g3683.t1.CDS2 27398147 27398298
chr_3 g3683 g3683.t1 exon g3683.t1.exon3 27398358 27399167
chr_3 g3683 g3683.t1 cds g3683.t1.CDS3 27398358 27399167
chr_3 g3683 g3683.t1 exon g3683.t1.exon4 27399248 27399616
chr_3 g3683 g3683.t1 cds g3683.t1.CDS4 27399248 27399616
chr_3 g3683 g3683.t1 TTS g3683.t1 27400047 27400047

Sequences

>g3683.t1 Gene=g3683 Length=1341
ATGTCTGCAGGTCATGGTGAAACAAGTTGGTGTTTCTCACAAGTCAAAGGCGCTTTAAAT
GATGATATTACTGATGCAGATGTCATTTCATGCGTAGAATTTAATCATGACGGTGACTTA
TTAGCAACGGGAGATAAAGGAGGCCGAGTTGTGATTTTTCAACGGGATCCTAGTTCTAAA
GCCGCTAACCCTCGTCGAGGAGAATTCAACGTATATAGTACTTTTCAGTCACATGAGCCA
GAATTTGACTATCTGAAGTCACTCGAGATTGAAGAGAAAATTAACAAAATCAGATGGTTA
AAACGTAAGAACCAAGCGCACTTCCTGCTATCTACGAACGATAAGACAATTAAGCTCTGG
AAGGTTTCGGAGCGTGACAAATGCGTAGAGGGCTATAATACAAAAGAAGAGAGCGGTAGG
ATTTTGGAACCAAAACAAATAACTTCTCTACGTGTGCCATCAATAAAACCGATGGATCTG
ATGGTTGAAGCAACTCCACGCCGTGTATTCGCAAATGCTCACACCTATCATATTAATTCA
ATTTCTGTCAATTCTGATCAAGAGACATATCTCTCGGCAGATGACTTGCGAATTAACTTG
TGGAATTTAGAAATTACCAATCAATCTTTTAATATCGTCGATATCAAACCATCAAATATG
GAGGAATTGACAGAAGTTATAACAGCAGCAGAGTTTCATCCTCGCGACTGCAATTTGTTT
GTATATTCAAGTAGTAAAGGTACAATACGCCTCTGCGACATGCGTTCAGCGGCACTATGC
GATCAACATGCAAAACTTTTTGAGGAGCCTGAAGACAACGAGATGAATAACAAGAGCTTC
TTTCGTGAGATTATCAGTTCTATAAGTGATGTAAAGATGAGCAATTCTGGACGTTATATG
ATGTCAAGAGACTATTTAAGTATTAAAATATGGGATTTGCATATGGAAACTAAACCAGTT
GAGACTTATTCGGTTCATGAATATTTGCGAACGAAATTATGCTCGCTTTATGAAAACGAT
TGCATTTTTGATAAATTCGAATGTTGTTGGAATGGCAATGATTCATCAATAATGACGGGC
AGTTATAATAATTTCTTCCGTGTCTTTGATCGCAATACAAAGAAGGACTTAACTATGGAG
GCGTCAAAGGATATAATCAAACCTAAAACTGTTCTTAAGCCGCGCAAAGTATACACTGGT
AACAAACGAAAAAAGGACGAAATTAGTGTTGATTGTTTGGATTTTAATAAAAAAATACTT
CATACCGCCTGGCATCCGCTCGAGAACATTTTAGCTGTAGCCGCTACAAACAACTTGTTT
ATCTTTCAAGATAAGTTTTAG

>g3683.t1 Gene=g3683 Length=446
MSAGHGETSWCFSQVKGALNDDITDADVISCVEFNHDGDLLATGDKGGRVVIFQRDPSSK
AANPRRGEFNVYSTFQSHEPEFDYLKSLEIEEKINKIRWLKRKNQAHFLLSTNDKTIKLW
KVSERDKCVEGYNTKEESGRILEPKQITSLRVPSIKPMDLMVEATPRRVFANAHTYHINS
ISVNSDQETYLSADDLRINLWNLEITNQSFNIVDIKPSNMEELTEVITAAEFHPRDCNLF
VYSSSKGTIRLCDMRSAALCDQHAKLFEEPEDNEMNNKSFFREIISSISDVKMSNSGRYM
MSRDYLSIKIWDLHMETKPVETYSVHEYLRTKLCSLYENDCIFDKFECCWNGNDSSIMTG
SYNNFFRVFDRNTKKDLTMEASKDIIKPKTVLKPRKVYTGNKRKKDEISVDCLDFNKKIL
HTAWHPLENILAVAATNNLFIFQDKF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g3683.t1 Gene3D G3DSA:2.130.10.10 - 55 443 2.3E-31
2 g3683.t1 PANTHER PTHR11871:SF2 SERINE/THREONINE-PROTEIN PHOSPHATASE 2A 55 KDA REGULATORY SUBUNIT B ALPHA ISOFORM 3 445 4.0E-258
3 g3683.t1 PANTHER PTHR11871 PROTEIN PHOSPHATASE PP2A REGULATORY SUBUNIT B 3 445 4.0E-258
16 g3683.t1 PIRSF PIRSF037309 PPA2_B55 2 446 7.5E-222
11 g3683.t1 PRINTS PR00600 Protein phosphatase PP2A 55kDa regulatory subunit signature 33 53 8.1E-152
5 g3683.t1 PRINTS PR00600 Protein phosphatase PP2A 55kDa regulatory subunit signature 68 96 8.1E-152
4 g3683.t1 PRINTS PR00600 Protein phosphatase PP2A 55kDa regulatory subunit signature 97 125 8.1E-152
10 g3683.t1 PRINTS PR00600 Protein phosphatase PP2A 55kDa regulatory subunit signature 174 201 8.1E-152
13 g3683.t1 PRINTS PR00600 Protein phosphatase PP2A 55kDa regulatory subunit signature 202 229 8.1E-152
12 g3683.t1 PRINTS PR00600 Protein phosphatase PP2A 55kDa regulatory subunit signature 230 258 8.1E-152
6 g3683.t1 PRINTS PR00600 Protein phosphatase PP2A 55kDa regulatory subunit signature 289 316 8.1E-152
7 g3683.t1 PRINTS PR00600 Protein phosphatase PP2A 55kDa regulatory subunit signature 317 342 8.1E-152
8 g3683.t1 PRINTS PR00600 Protein phosphatase PP2A 55kDa regulatory subunit signature 343 369 8.1E-152
9 g3683.t1 PRINTS PR00600 Protein phosphatase PP2A 55kDa regulatory subunit signature 413 442 8.1E-152
1 g3683.t1 Pfam PF00400 WD domain, G-beta repeat 15 53 0.075
18 g3683.t1 ProSitePatterns PS01024 Protein phosphatase 2A regulatory subunit PR55 signature 1. 81 95 -
17 g3683.t1 ProSitePatterns PS01025 Protein phosphatase 2A regulatory subunit PR55 signature 2. 172 186 -
19 g3683.t1 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 189 203 -
25 g3683.t1 SMART SM00320 WD40_4 16 54 1.0
22 g3683.t1 SMART SM00320 WD40_4 81 121 30.0
21 g3683.t1 SMART SM00320 WD40_4 163 202 1.4
20 g3683.t1 SMART SM00320 WD40_4 216 253 21.0
24 g3683.t1 SMART SM00320 WD40_4 339 370 170.0
23 g3683.t1 SMART SM00320 WD40_4 406 443 110.0
14 g3683.t1 SUPERFAMILY SSF50978 WD40 repeat-like 22 440 5.8E-39

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

Pathway

  • This transcript belongs to the following pathways

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