Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Trypsin 3A1.

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.t18 TSS g16629.t18 10317513 10317513
chr_4 g16629 g16629.t18 isoform g16629.t18 10317528 10318846
chr_4 g16629 g16629.t18 exon g16629.t18.exon1 10317528 10317684
chr_4 g16629 g16629.t18 cds g16629.t18.CDS1 10317528 10317684
chr_4 g16629 g16629.t18 exon g16629.t18.exon2 10317853 10317894
chr_4 g16629 g16629.t18 cds g16629.t18.CDS2 10317853 10317894
chr_4 g16629 g16629.t18 exon g16629.t18.exon3 10317948 10318173
chr_4 g16629 g16629.t18 cds g16629.t18.CDS3 10317948 10318173
chr_4 g16629 g16629.t18 exon g16629.t18.exon4 10318322 10318476
chr_4 g16629 g16629.t18 cds g16629.t18.CDS4 10318322 10318476
chr_4 g16629 g16629.t18 exon g16629.t18.exon5 10318537 10318557
chr_4 g16629 g16629.t18 cds g16629.t18.CDS5 10318537 10318557
chr_4 g16629 g16629.t18 exon g16629.t18.exon6 10318620 10318676
chr_4 g16629 g16629.t18 cds g16629.t18.CDS6 10318620 10318676
chr_4 g16629 g16629.t18 exon g16629.t18.exon7 10318768 10318846
chr_4 g16629 g16629.t18 cds g16629.t18.CDS7 10318768 10318790
chr_4 g16629 g16629.t18 TTS g16629.t18 10319022 10319022

Sequences

>g16629.t18 Gene=g16629 Length=737
ATGGCTTTTAAATTTCCATTTTTGCTGATATTTACAACTTTTTTCTTTTTTGTACAAGCA
GAAAGAGATCATAAAATTGTTGGTGGATCTACAGTTGATATTTCATCTTATCCATTTATG
GTTTCTGTTCAAAATAGAGGACGACATATTTGTGGAGGTTCCATTATAAAACCAAGATAT
GCCTTAACTGCAGCACATTGTTTATATGGAGGTTCAGCTTCATCATTTAGTGTTCGATCT
GATACATCTTTCAGAAATATGGGTGGAAGACTTCACAAAGCTAAAAGTATTAAAATTAAT
CCACAATATAACTCAAAAACTCATGATTATGATTCGGGTGTTATTGAAATTGGTGGTACT
TTTAGTGCTAACCCAGTACAGCTTGCAACTGTTTTGCCATCGAGTGGAAGCAGTGTCACA
GCAATTGGTTGGGGTGAATTAATAGAAAATGGTCCTTTACCTTTTAAATTACAAGCAGTT
GGACTAAATTTGATATCACAAGATCAATGTTCAAGATATTATCGTTCACATACATTTACT
GCTAGAATGATTTGTGCAGGAGTTAACGGTGGAGGAAAAGATACATGCCAAGGCGATTCA
GGTGGTCCACTTATTTCTAATGGAAATTTAATCGGCATCACATCTTTTGGTATTGGTTAT
TCAATAAATAAAACTTTTTAGGTGTCTACTCAAATGTGCCAAGTTTATATAAATGGATCA
ACGATGCAACACCATAA

>g16629.t18 Gene=g16629 Length=226
MAFKFPFLLIFTTFFFFVQAERDHKIVGGSTVDISSYPFMVSVQNRGRHICGGSIIKPRY
ALTAAHCLYGGSASSFSVRSDTSFRNMGGRLHKAKSIKINPQYNSKTHDYDSGVIEIGGT
FSANPVQLATVLPSSGSSVTAIGWGELIENGPLPFKLQAVGLNLISQDQCSRYYRSHTFT
ARMICAGVNGGGKDTCQGDSGGPLISNGNLIGITSFGIGYSINKTF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g16629.t18 CDD cd00190 Tryp_SPc 26 219 2.43571E-71
7 g16629.t18 Gene3D G3DSA:2.40.10.10 - 26 220 2.1E-56
8 g16629.t18 Gene3D G3DSA:2.40.10.10 - 38 125 2.1E-56
2 g16629.t18 PANTHER PTHR24276 POLYSERASE-RELATED 22 218 6.6E-56
3 g16629.t18 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 52 67 2.7E-10
4 g16629.t18 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 193 205 2.7E-10
1 g16629.t18 Pfam PF00089 Trypsin 26 220 3.1E-47
10 g16629.t18 Phobius SIGNAL_PEPTIDE Signal peptide region 1 20 -
11 g16629.t18 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 4 -
12 g16629.t18 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 5 16 -
13 g16629.t18 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 17 20 -
9 g16629.t18 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 21 226 -
16 g16629.t18 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 62 67 -
17 g16629.t18 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 194 205 -
18 g16629.t18 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 26 226 24.979
15 g16629.t18 SMART SM00020 trypsin_2 25 222 5.4E-47
5 g16629.t18 SUPERFAMILY SSF50494 Trypsin-like serine proteases 20 222 3.56E-59
6 g16629.t18 SignalP_EUK SignalP-noTM SignalP-noTM 1 20 -

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