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.t8 TTS g3378.t8 24969849 24969849
chr_3 g3378 g3378.t8 isoform g3378.t8 24970871 24972079
chr_3 g3378 g3378.t8 exon g3378.t8.exon1 24970871 24971079
chr_3 g3378 g3378.t8 cds g3378.t8.CDS1 24970873 24971079
chr_3 g3378 g3378.t8 exon g3378.t8.exon2 24971152 24971461
chr_3 g3378 g3378.t8 cds g3378.t8.CDS2 24971152 24971461
chr_3 g3378 g3378.t8 exon g3378.t8.exon3 24971529 24972079
chr_3 g3378 g3378.t8 cds g3378.t8.CDS3 24971529 24972079
chr_3 g3378 g3378.t8 TSS g3378.t8 NA NA

Sequences

>g3378.t8 Gene=g3378 Length=1070
ATGCCAGCTTATTACGAGATGCTGGTATCACAAAGTCCTCCACTATTCAGTCATAGTCCT
CCGACTGGATTTCTATCAGAGTATGGACCTAATCGATTCTATGAATCGCCACGCTTTTGT
CGATCAGCCGCTGTCCTCTCGCCACTTTCACAACGCCGTTTTGCGCAAAACAATCCACAA
ACTTCCTTATATCAATCACATTTACAAAGTCTAACGCCATATAAACCATGCATTGTACCT
AAACCACGCCGTTCATGCCTTATTGTTCGAAACGAGCCAGATCACTTGAAAAACGATACA
ACTAGCGATAGCAGCGAAGATAGTGATGATTGCGACAGACAAGTACGTAAGCCAAAAAAG
CGTGTCGTATTTGCGGATGACAAAGGGCTCGAATTAGAACAAGTTAAAATAATGTCGGAG
GCATCAACTCAACCGCCAACGTGGTCACTGCAATTTCTCGCACACGTTACTCAGGGAATG
ATTTCGCCTGTGCCACAAGAGCAGTGGACTATTGATTTTAGGCAGCCAGCGTCAGATTAT
CTAGAGTTTAGGCGCAAATTAGAAAATAATTTCGTGTCATTGGAAAATGTCATAATAAAA
GAATCCGAATCAACTGTTGTAGGAACAGTGAAAGTGAAAAACTTAAGTTATCATAAAGAA
GTCATAATCCGATCATCTTGGGATAACTGGAAATCTGAAACTGATACACTCTGCACATAC
TCGAAAATTGTGGGCGCTAGTGGAGCATATGTAATTTATGACACATTTTCATTTAAACTA
ACACTTCCACCGCATTCGCGATCGTTGGAGTTTTGTGTATGCTATAGAACAGATGGAAAA
GAATTCTGGGACAACAATGGAGGTGTCAATTACAAGCTTACAAACCGCGTTTCAGCTCAA
CAGCAAGAAAATGAGCTTGTGATAAGACTTAATAATACATCACTCAATGATCAACGTAAA
GATTCAAAAGAGAATCAATCGCCAACTGACTCTGATGTACCAAAACCACATTTCGGCTCA
TGGTCAGAATTTAGTACACGACACTCTGAGACACCACTACCTTATTGGTA

>g3378.t8 Gene=g3378 Length=356
MPAYYEMLVSQSPPLFSHSPPTGFLSEYGPNRFYESPRFCRSAAVLSPLSQRRFAQNNPQ
TSLYQSHLQSLTPYKPCIVPKPRRSCLIVRNEPDHLKNDTTSDSSEDSDDCDRQVRKPKK
RVVFADDKGLELEQVKIMSEASTQPPTWSLQFLAHVTQGMISPVPQEQWTIDFRQPASDY
LEFRRKLENNFVSLENVIIKESESTVVGTVKVKNLSYHKEVIIRSSWDNWKSETDTLCTY
SKIVGASGAYVIYDTFSFKLTLPPHSRSLEFCVCYRTDGKEFWDNNGGVNYKLTNRVSAQ
QQENELVIRLNNTSLNDQRKDSKENQSPTDSDVPKPHFGSWSEFSTRHSETPLPYW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g3378.t8 Gene3D G3DSA:2.60.40.2440 - 168 295 3.8E-39
6 g3378.t8 MobiDBLite mobidb-lite consensus disorder prediction 91 118 -
5 g3378.t8 MobiDBLite mobidb-lite consensus disorder prediction 310 356 -
4 g3378.t8 MobiDBLite mobidb-lite consensus disorder prediction 316 330 -
2 g3378.t8 PANTHER PTHR12307:SF47 PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT 52 344 4.1E-75
3 g3378.t8 PANTHER PTHR12307 PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT 52 344 4.1E-75
1 g3378.t8 Pfam PF03370 Carbohydrate/starch-binding module (family 21) 187 293 2.6E-29
8 g3378.t8 ProSiteProfiles PS51159 CBM21 (carbohydrate binding type-21) domain profile. 184 294 25.708

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

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