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.t9 TSS g16629.t9 10317513 10317513
chr_4 g16629 g16629.t9 isoform g16629.t9 10317528 10318846
chr_4 g16629 g16629.t9 exon g16629.t9.exon1 10317528 10317684
chr_4 g16629 g16629.t9 cds g16629.t9.CDS1 10317528 10317684
chr_4 g16629 g16629.t9 exon g16629.t9.exon2 10317853 10317894
chr_4 g16629 g16629.t9 cds g16629.t9.CDS2 10317853 10317894
chr_4 g16629 g16629.t9 exon g16629.t9.exon3 10317948 10318173
chr_4 g16629 g16629.t9 cds g16629.t9.CDS3 10317948 10318173
chr_4 g16629 g16629.t9 exon g16629.t9.exon4 10318322 10318476
chr_4 g16629 g16629.t9 cds g16629.t9.CDS4 10318322 10318476
chr_4 g16629 g16629.t9 exon g16629.t9.exon5 10318614 10318697
chr_4 g16629 g16629.t9 cds g16629.t9.CDS5 10318614 10318697
chr_4 g16629 g16629.t9 exon g16629.t9.exon6 10318791 10318846
chr_4 g16629 g16629.t9 cds g16629.t9.CDS6 10318791 10318846
chr_4 g16629 g16629.t9 TTS g16629.t9 10319022 10319022

Sequences

>g16629.t9 Gene=g16629 Length=720
ATGGCTTTTAAATTTCCATTTTTGCTGATATTTACAACTTTTTTCTTTTTTGTACAAGCA
GAAAGAGATCATAAAATTGTTGGTGGATCTACAGTTGATATTTCATCTTATCCATTTATG
GTTTCTGTTCAAAATAGAGGACGACATATTTGTGGAGGTTCCATTATAAAACCAAGATAT
GCCTTAACTGCAGCACATTGTTTATATGGAGGTTCAGCTTCATCATTTAGTGTTCGATCT
GATACATCTTTCAGAAATATGGGTGGAAGACTTCACAAAGCTAAAAGTATTAAAATTAAT
CCACAATATAACTCAAAAACTCATGATTATGATTCGGGTGTTATTGAAATTGGTGGTACT
TTTAGTGCTAACCCAGTACAGCTTGCAACTGTTTTGCCATCGAGTGGAAGCAGTGTCACA
GCAATTGGTTGGGGTGAATTAATAGAAAATGGTCCTTTACCTTTTAAATTACAAGCAGTT
GGACTAAATTTGATATCACAAGATCAATGTTCAAGATATTATCGTTCACATACATTTACT
GCTAGAATGATTTGTGCAGGAGTTAACGGTGGAGGAAAAGATTCAGGTGGTCCACTTATT
TCTAATGGAAATTTAATCGGCATCACATCTTTTGGTATTGGTTGTGCTCGAGCAAATTAT
CCAGGTGTCTACTCAAATGTGCCAAGTTTATATAAATGGATCAACGATGCAACACCATAA

>g16629.t9 Gene=g16629 Length=239
MAFKFPFLLIFTTFFFFVQAERDHKIVGGSTVDISSYPFMVSVQNRGRHICGGSIIKPRY
ALTAAHCLYGGSASSFSVRSDTSFRNMGGRLHKAKSIKINPQYNSKTHDYDSGVIEIGGT
FSANPVQLATVLPSSGSSVTAIGWGELIENGPLPFKLQAVGLNLISQDQCSRYYRSHTFT
ARMICAGVNGGGKDSGGPLISNGNLIGITSFGIGCARANYPGVYSNVPSLYKWINDATP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g16629.t9 CDD cd00190 Tryp_SPc 26 236 7.06049E-77
9 g16629.t9 Gene3D G3DSA:2.40.10.10 - 26 228 4.3E-56
8 g16629.t9 Gene3D G3DSA:2.40.10.10 - 38 229 4.3E-56
2 g16629.t9 PANTHER PTHR24276 POLYSERASE-RELATED 19 236 3.2E-61
3 g16629.t9 PANTHER PTHR24276:SF78 AT20289P-RELATED 19 236 3.2E-61
5 g16629.t9 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 52 67 7.7E-5
4 g16629.t9 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 188 200 7.7E-5
1 g16629.t9 Pfam PF00089 Trypsin 26 234 9.3E-48
11 g16629.t9 Phobius SIGNAL_PEPTIDE Signal peptide region 1 20 -
12 g16629.t9 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 4 -
13 g16629.t9 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 5 16 -
14 g16629.t9 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 17 20 -
10 g16629.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 21 239 -
17 g16629.t9 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 62 67 -
18 g16629.t9 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 26 239 26.175
16 g16629.t9 SMART SM00020 trypsin_2 25 234 3.2E-57
6 g16629.t9 SUPERFAMILY SSF50494 Trypsin-like serine proteases 6 238 8.56E-63
7 g16629.t9 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