Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Trypsin-1.

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_2 g4668 g4668.t2 TTS g4668.t2 4037979 4037979
chr_2 g4668 g4668.t2 isoform g4668.t2 4038093 4038974
chr_2 g4668 g4668.t2 exon g4668.t2.exon1 4038093 4038239
chr_2 g4668 g4668.t2 cds g4668.t2.CDS1 4038200 4038239
chr_2 g4668 g4668.t2 exon g4668.t2.exon2 4038370 4038974
chr_2 g4668 g4668.t2 cds g4668.t2.CDS2 4038370 4038974
chr_2 g4668 g4668.t2 TSS g4668.t2 4040003 4040003

Sequences

>g4668.t2 Gene=g4668 Length=752
ATGAAACTTCCAGTAATATTTTTATTAATCAACTTTCTTAGAGTGATCAATTGTGAAACA
AACATCGATGATCAGAAAATTGTAGGAGGATTTCAAATTAGTATTTTAGATGCATCTTAT
CAAGGTGCATTGCTTTATCGAAATAGTTTCATTTGTGGATGCTCGATTATTTCACCAAAA
TATCTTTTAACTGCTGCTCATTGTGTTCATGAATATCGAAATAGTTTGACTATTAGAGTT
GGCTCTTCACATGCATATCATGGAGGAGAGGTTTATCAAGTTGAAAAAGTAATCAAACAT
CCATTATTTTCGATAACCACTCTAAATAATGATTTTGCTCTTCTTAAATTGAAAAACAAC
ATCACATTGATTAATGGTGAAAAAGAAATTATTAAATTGCCAAGAGCCAATGAAAATATT
GAAGAAGGTACTGAAGTTTTTGTAAGTGGCTTTGGCTCAACAAATGATCTGACGACGAAT
GATCATACTCTTCGTGGTGTAATAGTTCCAATTGTCTCACAAAGTGAATGCAAAAGAGCT
TATCCCAAAATGATTACGAATAGAATGATCTGTGCAGGCTTTGAAGAAGGCAAAAAAGAT
GCATGTTTAAAAAAGGTGGACCTATGGTTCGCGATCGAACATTAGTAGGAGTTGTATCAT
TTGGGATTGGTTGCGCTCTTCCAAAAATGTATGGTGTTTATGGCAAAGTTTCTACAGTAA
GAAATTGGATAAAAGCTGAAACAATCATTTAA

>g4668.t2 Gene=g4668 Length=214
MKLPVIFLLINFLRVINCETNIDDQKIVGGFQISILDASYQGALLYRNSFICGCSIISPK
YLLTAAHCVHEYRNSLTIRVGSSHAYHGGEVYQVEKVIKHPLFSITTLNNDFALLKLKNN
ITLINGEKEIIKLPRANENIEEGTEVFVSGFGSTNDLTTNDHTLRGVIVPIVSQSECKRA
YPKMITNRMICAGFEEGKKDACLKKVDLWFAIEH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g4668.t2 CDD cd00190 Tryp_SPc 27 202 5.38407E-60
8 g4668.t2 Gene3D G3DSA:2.40.10.10 - 27 202 1.0E-43
9 g4668.t2 Gene3D G3DSA:2.40.10.10 - 39 130 1.0E-43
2 g4668.t2 PANTHER PTHR24276 POLYSERASE-RELATED 23 202 3.6E-54
3 g4668.t2 PANTHER PTHR24276:SF83 GH13245P2-RELATED 23 202 3.6E-54
5 g4668.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 53 68 1.7E-6
4 g4668.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 107 121 1.7E-6
1 g4668.t2 Pfam PF00089 Trypsin 27 202 1.7E-40
11 g4668.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 18 -
12 g4668.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
13 g4668.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 13 -
14 g4668.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 14 18 -
10 g4668.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 19 214 -
17 g4668.t2 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 63 68 -
18 g4668.t2 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 27 202 20.02
16 g4668.t2 SMART SM00020 trypsin_2 26 210 1.6E-27
6 g4668.t2 SUPERFAMILY SSF50494 Trypsin-like serine proteases 9 203 2.62E-48
7 g4668.t2 SignalP_EUK SignalP-noTM SignalP-noTM 1 18 -

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