Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Protein phosphatase 1B.

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 g2337 g2337.t7 TTS g2337.t7 16896666 16896666
chr_3 g2337 g2337.t7 isoform g2337.t7 16896837 16899987
chr_3 g2337 g2337.t7 exon g2337.t7.exon1 16896837 16897292
chr_3 g2337 g2337.t7 cds g2337.t7.CDS1 16897223 16897292
chr_3 g2337 g2337.t7 exon g2337.t7.exon2 16897364 16897466
chr_3 g2337 g2337.t7 cds g2337.t7.CDS2 16897364 16897466
chr_3 g2337 g2337.t7 exon g2337.t7.exon3 16899432 16899549
chr_3 g2337 g2337.t7 cds g2337.t7.CDS3 16899432 16899549
chr_3 g2337 g2337.t7 exon g2337.t7.exon4 16899606 16899731
chr_3 g2337 g2337.t7 cds g2337.t7.CDS4 16899606 16899731
chr_3 g2337 g2337.t7 exon g2337.t7.exon5 16899790 16899987
chr_3 g2337 g2337.t7 cds g2337.t7.CDS5 16899790 16899948
chr_3 g2337 g2337.t7 TSS g2337.t7 NA NA

Sequences

>g2337.t7 Gene=g2337 Length=1001
TCTGAAAAGGAACGAATTGTAAATGCAGGAGGATCGGTTATGGTACAACGTGTCAACGGT
AGCCTCGCAGTATCGAGAGCACTTGGAGATTATGATTACAAAAATGTCTCGGAATTGGGT
CAATGTGAACAGTTGGTATCACCTGAACCCGAGATTTTCTGCAAAGAACGTGATCCTCAG
GACTTTTTTCTAGTGCTTGCTTGCGACGGTGTATGGGATGTGATGAGTAACGAGGCCGTC
TGTAATTTTGTTCATAATCGCCTTCGAATTTCTGATGACTTGGTGTGGATTTGTAATCAA
GTTATTGACACATGCTTGCACAAGGGTTCTCGCGATAATATGAGCATCATTCTAATAGTA
TTCCCCGGAGCGCCGAAACCTTCCAGTGAAGCTATTGAAGCAGAAGAGGAGCTTGAGAGG
AATATACGTAAAACTATAAAAGAATTCACAGAAAATACGGAGGCTGCATACGATGTGAGT
TCATTAATGCGCTTATTAGCCAGCAGTAACATTCAGTGGCCGGAAGGTGGTGGTATAGAA
TCTAAATATAAACTTATTACGGAAGTATTTAAGGAAATCTGTCCTGATCTCACTGATGCA
GAATTCGAGTTTTAAAGAAAACCCTTTTTTACAATAGAATATTGATTATGATTTTCTTTG
ATAAAAAAAAACAACCTTTGATACAATTATTCAGCCAAATAACTATTGGAACAATATTTC
AAACTACTATTTCAAATGAAGAAGAAAATAAGAAATGAGTAAAAATGATATCCGTGATTA
CAAATGAAGTAGAAATAAGCTGTTCTAATTTCCATCTTAAAATATTGTACATAAATTTTA
CTTAAATTTCCTCTTAAATATTCTAATTTTGACGATTTTTTTTACAATGAAATTCTTTTC
CATCAACTTTTTTTTTCTTAAAATAAAATCAAATTTACACTTTTACAAACATACGCCAGT
TTCTATTTTATGCGTGTGTAATTAAATATTTAATGATGAGA

>g2337.t7 Gene=g2337 Length=191
MVQRVNGSLAVSRALGDYDYKNVSELGQCEQLVSPEPEIFCKERDPQDFFLVLACDGVWD
VMSNEAVCNFVHNRLRISDDLVWICNQVIDTCLHKGSRDNMSIILIVFPGAPKPSSEAIE
AEEELERNIRKTIKEFTENTEAAYDVSSLMRLLASSNIQWPEGGGIESKYKLITEVFKEI
CPDLTDAEFEF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g2337.t7 CDD cd00143 PP2Cc 1 108 1.18544E-35
9 g2337.t7 Coils Coil Coil 115 139 -
8 g2337.t7 Gene3D G3DSA:3.60.40.10 Phosphatase 2c; Domain 1 1 115 8.2E-42
7 g2337.t7 Gene3D G3DSA:1.10.10.430 Phosphatase 2C; domain 2 116 183 7.7E-14
3 g2337.t7 PANTHER PTHR47992:SF123 PHOSPHATASE, MG2+/MN2+-DEPENDENT, 1NB (PUTATIVE)-RELATED 2 151 7.7E-51
4 g2337.t7 PANTHER PTHR47992 ALPHABET, ISOFORM E-RELATED 2 151 7.7E-51
2 g2337.t7 Pfam PF00481 Protein phosphatase 2C 2 101 4.7E-30
1 g2337.t7 Pfam PF07830 Protein serine/threonine phosphatase 2C, C-terminal domain 102 178 1.3E-23
10 g2337.t7 ProSiteProfiles PS51746 PPM-type phosphatase domain profile. 1 108 22.575
5 g2337.t7 SUPERFAMILY SSF81606 PP2C-like 3 110 3.27E-34
6 g2337.t7 SUPERFAMILY SSF81601 Protein serine/threonine phosphatase 2C, C-terminal domain 114 182 1.44E-11

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:0000287 magnesium ion binding MF
GO:0004721 phosphoprotein phosphatase activity MF
GO:0016791 phosphatase activity MF
GO:0030145 manganese ion binding MF

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