Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Trypsin .

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_4 g16629 g16629.t3 TSS g16629.t3 10317513 10317513
chr_4 g16629 g16629.t3 isoform g16629.t3 10317528 10318708
chr_4 g16629 g16629.t3 exon g16629.t3.exon1 10317528 10317712
chr_4 g16629 g16629.t3 exon g16629.t3.exon2 10317948 10318173
chr_4 g16629 g16629.t3 cds g16629.t3.CDS1 10318007 10318173
chr_4 g16629 g16629.t3 exon g16629.t3.exon3 10318322 10318476
chr_4 g16629 g16629.t3 cds g16629.t3.CDS2 10318322 10318476
chr_4 g16629 g16629.t3 exon g16629.t3.exon4 10318537 10318557
chr_4 g16629 g16629.t3 cds g16629.t3.CDS3 10318537 10318557
chr_4 g16629 g16629.t3 exon g16629.t3.exon5 10318620 10318708
chr_4 g16629 g16629.t3 cds g16629.t3.CDS4 10318620 10318702
chr_4 g16629 g16629.t3 TTS g16629.t3 10319022 10319022

Sequences

>g16629.t3 Gene=g16629 Length=676
ATGGCTTTTAAATTTCCATTTTTGCTGATATTTACAACTTTTTTCTTTTTTGTACAAGCA
GAAAGAGATCATAAAATTGTTGGTGGATCTACAGTTGATATTTCATCTTATCCATTTATG
GTTTCTGTTCAAAATAGAGGACGACATATTTGTGGAGGTAAAATTAAAATTAATTTTTCT
GAACAGTTTATATGGAGGTTCAGCTTCATCATTTAGTGTTCGATCTGATACATCTTTCAG
AAATATGGGTGGAAGACTTCACAAAGCTAAAAGTATTAAAATTAATCCACAATATAACTC
AAAAACTCATGATTATGATTCGGGTGTTATTGAAATTGGTGGTACTTTTAGTGCTAACCC
AGTACAGCTTGCAACTGTTTTGCCATCGAGTGGAAGCAGTGTCACAGCAATTGGTTGGGG
TGAATTAATAGAAAATGGTCCTTTACCTTTTAAATTACAAGCAGTTGGACTAAATTTGAT
ATCACAAGATCAATGTTCAAGATATTATCGTTCACATACATTTACTGCTAGAATGATTTG
TGCAGGAGTTAACGGTGGAGGAAAAGATACATGCCAAGGCGATTCAGGTGGTCCACTTAT
TTCTAATGGAAATTTAATCGGCATCACATCTTTTGGTATTGGTTGTGCTCGAGCAAATTA
TCCAGGTTAGTTTTAC

>g16629.t3 Gene=g16629 Length=141
MGGRLHKAKSIKINPQYNSKTHDYDSGVIEIGGTFSANPVQLATVLPSSGSSVTAIGWGE
LIENGPLPFKLQAVGLNLISQDQCSRYYRSHTFTARMICAGVNGGGKDTCQGDSGGPLIS
NGNLIGITSFGIGCARANYPG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g16629.t3 CDD cd00190 Tryp_SPc 2 141 4.95389E-48
4 g16629.t3 Gene3D G3DSA:2.40.10.10 - 4 39 6.2E-38
5 g16629.t3 Gene3D G3DSA:2.40.10.10 - 40 141 6.2E-38
2 g16629.t3 PANTHER PTHR24276 POLYSERASE-RELATED 4 141 2.0E-35
1 g16629.t3 Pfam PF00089 Trypsin 7 141 1.3E-32
7 g16629.t3 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 108 119 -
9 g16629.t3 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 1 141 18.047
8 g16629.t3 SMART SM00020 trypsin_2 2 141 1.7E-10
3 g16629.t3 SUPERFAMILY SSF50494 Trypsin-like serine proteases 3 141 5.2E-37

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:0004252 serine-type endopeptidase activity MF
GO:0006508 proteolysis BP

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. There were no conditions that were differentially expressed