Gene loci information

Transcript annotation

  • This transcript has been annotated as Serine/threonine-protein phosphatase PP1-beta catalytic 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 g2191 g2191.t1 isoform g2191.t1 15880750 15887298
chr_3 g2191 g2191.t1 exon g2191.t1.exon1 15880750 15880791
chr_3 g2191 g2191.t1 cds g2191.t1.CDS1 15880750 15880791
chr_3 g2191 g2191.t1 exon g2191.t1.exon2 15880866 15881131
chr_3 g2191 g2191.t1 cds g2191.t1.CDS2 15880866 15881131
chr_3 g2191 g2191.t1 exon g2191.t1.exon3 15881325 15881358
chr_3 g2191 g2191.t1 cds g2191.t1.CDS3 15881325 15881358
chr_3 g2191 g2191.t1 exon g2191.t1.exon4 15881818 15881836
chr_3 g2191 g2191.t1 cds g2191.t1.CDS4 15881818 15881836
chr_3 g2191 g2191.t1 exon g2191.t1.exon5 15882037 15882157
chr_3 g2191 g2191.t1 cds g2191.t1.CDS5 15882037 15882157
chr_3 g2191 g2191.t1 exon g2191.t1.exon6 15883019 15883132
chr_3 g2191 g2191.t1 cds g2191.t1.CDS6 15883019 15883132
chr_3 g2191 g2191.t1 exon g2191.t1.exon7 15883211 15883243
chr_3 g2191 g2191.t1 cds g2191.t1.CDS7 15883211 15883243
chr_3 g2191 g2191.t1 exon g2191.t1.exon8 15883301 15883357
chr_3 g2191 g2191.t1 cds g2191.t1.CDS8 15883301 15883357
chr_3 g2191 g2191.t1 exon g2191.t1.exon9 15883420 15883431
chr_3 g2191 g2191.t1 cds g2191.t1.CDS9 15883420 15883431
chr_3 g2191 g2191.t1 exon g2191.t1.exon10 15883660 15883791
chr_3 g2191 g2191.t1 cds g2191.t1.CDS10 15883660 15883791
chr_3 g2191 g2191.t1 exon g2191.t1.exon11 15887253 15887298
chr_3 g2191 g2191.t1 cds g2191.t1.CDS11 15887253 15887298
chr_3 g2191 g2191.t1 TSS g2191.t1 15887451 15887451
chr_3 g2191 g2191.t1 TTS g2191.t1 NA NA

Sequences

>g2191.t1 Gene=g2191 Length=876
ATGGATAATTTGGATATTGACTCAATCATCTCTCGCCTAACCGAACTTCGCACTAATAAG
CCTAATCGTGCGGTGCAAATGACAGAGCAAGAAGTTCGCGGCTTATGTTTAAAATCTCGT
GAAATTTTTCTACAGCAACCGATACTACTTGAATTAGAAGCACCATTGAAAATTTGTGAA
GATATCCATGGTCAATATACTGATCTCCTGCGTCTCTTTGAATATGGAGGATTCCCGCCA
TCTGCAAATTATCTTTTTCTCGGTGACTATGTCGATAGAGGAAAGCAATCGTTAGAAACG
ATTTGTCTTCTGCTCGCATACAAAATCAAATATCCTGAAAATTTCTTTTTGCTTCGCGGC
AATCATGAGTGTGCAAGCATAAATCGAATTTATGGATTCTATGATGAATGTAAACGTCGT
TACAACGTAAAATTGTGGAAGACATTTACAGATTGCTTCAATTGCCTGCCCATTGCCGCC
ATTATTGATGAGAAGATTTTCTGCTGCCATGGAGGACTCTCACCAGACTTATCGGGAATG
GAGCAAATTCGTAGAATTATGCGTCCAAGTCTATTGTGTGATCTATTATGGAGTGATCCA
GATAAAGATGTACAAGGATGGGGAGAGAATGATCGTGGAGTTAGTTTTACATTTGGAGCA
GATATTGTGTCGAAATTTCTCAACCGTCATGATCTTGATTTAATTTGTCGAGCTCATCAA
GTTGTAGAAGACGGATATGAATTCTTTGCCAAACGATCTTTAGTGACGTTATTCTCAGCG
CCAAATTATTGTGGAGAATTTGACAACGCTGGGGGAATGATGAGCATAGATGACTCCCTA
ATGTGTAGCTTTCAGGTGAGTCTAATTCAAATTTAA

>g2191.t1 Gene=g2191 Length=291
MDNLDIDSIISRLTELRTNKPNRAVQMTEQEVRGLCLKSREIFLQQPILLELEAPLKICE
DIHGQYTDLLRLFEYGGFPPSANYLFLGDYVDRGKQSLETICLLLAYKIKYPENFFLLRG
NHECASINRIYGFYDECKRRYNVKLWKTFTDCFNCLPIAAIIDEKIFCCHGGLSPDLSGM
EQIRRIMRPSLLCDLLWSDPDKDVQGWGENDRGVSFTFGADIVSKFLNRHDLDLICRAHQ
VVEDGYEFFAKRSLVTLFSAPNYCGEFDNAGGMMSIDDSLMCSFQVSLIQI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g2191.t1 CDD cd07414 MPP_PP1_PPKL 5 286 0.0
12 g2191.t1 Gene3D G3DSA:3.60.21.10 - 1 290 1.1E-129
3 g2191.t1 PANTHER PTHR11668:SF449 SERINE/THREONINE-PROTEIN PHOSPHATASE 3 286 3.2E-186
4 g2191.t1 PANTHER PTHR11668 SERINE/THREONINE PROTEIN PHOSPHATASE 3 286 3.2E-186
10 g2191.t1 PRINTS PR00114 Serine/threonine phosphatase family signature 55 82 8.3E-82
8 g2191.t1 PRINTS PR00114 Serine/threonine phosphatase family signature 84 111 8.3E-82
9 g2191.t1 PRINTS PR00114 Serine/threonine phosphatase family signature 117 141 8.3E-82
5 g2191.t1 PRINTS PR00114 Serine/threonine phosphatase family signature 151 177 8.3E-82
7 g2191.t1 PRINTS PR00114 Serine/threonine phosphatase family signature 231 251 8.3E-82
6 g2191.t1 PRINTS PR00114 Serine/threonine phosphatase family signature 253 269 8.3E-82
1 g2191.t1 Pfam PF16891 Serine-threonine protein phosphatase N-terminal domain 6 53 4.6E-19
2 g2191.t1 Pfam PF00149 Calcineurin-like phosphoesterase 61 241 2.9E-34
14 g2191.t1 ProSitePatterns PS00125 Serine/threonine specific protein phosphatases signature. 118 123 -
15 g2191.t1 SMART SM00156 pp2a_7 27 291 1.3E-149
11 g2191.t1 SUPERFAMILY SSF56300 Metallo-dependent phosphatases 17 286 1.82E-108

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:0016787 hydrolase activity MF

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