Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Protein phosphatase 1 regulatory subunit 3C.

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 g3378 g3378.t5 isoform g3378.t5 24969612 24971461
chr_3 g3378 g3378.t5 exon g3378.t5.exon1 24969612 24970227
chr_3 g3378 g3378.t5 cds g3378.t5.CDS1 24970185 24970227
chr_3 g3378 g3378.t5 exon g3378.t5.exon2 24970874 24971079
chr_3 g3378 g3378.t5 cds g3378.t5.CDS2 24970874 24971079
chr_3 g3378 g3378.t5 exon g3378.t5.exon3 24971152 24971461
chr_3 g3378 g3378.t5 cds g3378.t5.CDS3 24971152 24971460
chr_3 g3378 g3378.t5 TSS g3378.t5 NA NA
chr_3 g3378 g3378.t5 TTS g3378.t5 NA NA

Sequences

>g3378.t5 Gene=g3378 Length=1132
GCGCAAATTAGAAAATAATTTCGTGTCATTGGAAAATGTCATAATAAAAGAATCCGAATC
AACTGTTGTAGGAACAGTGAAAGTGAAAAACTTAAGTTATCATAAAGAAGTCATAATCCG
ATCATCTTGGGATAACTGGAAATCTGAAACTGATACACTCTGCACATACTCGAAAATTGT
GGGCGCTAGTGGAGCATATGTAATTTATGACACATTTTCATTTAAACTAACACTTCCACC
GCATTCGCGATCGTTGGAGTTTTGTGTATGCTATAGAACAGATGGAAAAGAATTCTGGGA
CAACAATGGAGGTGTCAATTACAAGCTTACAAACCGCGTTTCAGCTCAACAGCAAGAAAA
TGAGCTTGTGATAAGACTTAATAATACATCACTCAATGATCAACGTAAAGATTCAAAAGA
GAATCAATCGCCAACTGACTCTGATGTACCAAAACCACATTTCGGCTCATGGTCAGAATT
TAGTACACGACACTCTGAGACACCACTACCTTATTGTTCATCATCGAGTAACGGAGTTTG
CATTGGTTTAAACAAGTGAAACTTCATGGAAATACAATTTATGCTACATATTGGTGTAGA
TATATATTATTATTTAAAATCGAAATCATTAACATGAAATTGCTCAACGTAAAGTACAAA
CTTGTGAAACTTTGGAATTTTCCGAATCGTGAGCTAGATAAAGAGAAGAAAGAAGCTCTA
AAGAAGGCCGAAAATTGTTACGCAATAATATTTTTTTATATTAAAAAAAGTAAACTAATT
GTGATGTGAATGGTTTAATGGAAGAAGCTCAGGTGAAGGATATCATTATTGGCAGAAATC
GAGCAAGATAGGGTGTGTGTTTTTAAAAGAGTAAAGATATGAATGTATGTCAATGAAAAA
AGAAAGAAAATAGCTTTTTTGATGTTAAAAGTTGTATCGATTTGATATTATTATTTAATT
TTAATTGTTAATATATATGCAATCATTATTAATTATTATTTTGTGTTTAAAGTGAAATTT
GATCGAAACAAATAATTTTCAAGTAAAGATCAAATCTCTATTTTTATTATATTTAATGGA
AACCAATCAAGCCATGAGCGAAAAAAAGAGTGTTGATATGTATATGTGAGAG

>g3378.t5 Gene=g3378 Length=185
RKLENNFVSLENVIIKESESTVVGTVKVKNLSYHKEVIIRSSWDNWKSETDTLCTYSKIV
GASGAYVIYDTFSFKLTLPPHSRSLEFCVCYRTDGKEFWDNNGGVNYKLTNRVSAQQQEN
ELVIRLNNTSLNDQRKDSKENQSPTDSDVPKPHFGSWSEFSTRHSETPLPYCSSSSNGVC
IGLNK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g3378.t5 Gene3D G3DSA:2.60.40.2440 - 1 114 1.8E-34
5 g3378.t5 MobiDBLite mobidb-lite consensus disorder prediction 126 153 -
4 g3378.t5 MobiDBLite mobidb-lite consensus disorder prediction 132 146 -
2 g3378.t5 PANTHER PTHR12307:SF47 PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT 2 160 7.5E-47
3 g3378.t5 PANTHER PTHR12307 PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT 2 160 7.5E-47
1 g3378.t5 Pfam PF03370 Carbohydrate/starch-binding module (family 21) 3 109 5.7E-30
7 g3378.t5 ProSiteProfiles PS51159 CBM21 (carbohydrate binding type-21) domain profile. 1 110 25.651

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

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