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.t7 TSS g16629.t7 10317513 10317513
chr_4 g16629 g16629.t7 isoform g16629.t7 10317528 10318846
chr_4 g16629 g16629.t7 exon g16629.t7.exon1 10317528 10317684
chr_4 g16629 g16629.t7 cds g16629.t7.CDS1 10317528 10317684
chr_4 g16629 g16629.t7 exon g16629.t7.exon2 10317853 10317894
chr_4 g16629 g16629.t7 cds g16629.t7.CDS2 10317853 10317894
chr_4 g16629 g16629.t7 exon g16629.t7.exon3 10317948 10318173
chr_4 g16629 g16629.t7 cds g16629.t7.CDS3 10317948 10318173
chr_4 g16629 g16629.t7 exon g16629.t7.exon4 10318322 10318476
chr_4 g16629 g16629.t7 cds g16629.t7.CDS4 10318322 10318476
chr_4 g16629 g16629.t7 exon g16629.t7.exon5 10318620 10318697
chr_4 g16629 g16629.t7 cds g16629.t7.CDS5 10318620 10318697
chr_4 g16629 g16629.t7 exon g16629.t7.exon6 10318791 10318846
chr_4 g16629 g16629.t7 cds g16629.t7.CDS6 10318791 10318846
chr_4 g16629 g16629.t7 TTS g16629.t7 10319022 10319022

Sequences

>g16629.t7 Gene=g16629 Length=714
ATGGCTTTTAAATTTCCATTTTTGCTGATATTTACAACTTTTTTCTTTTTTGTACAAGCA
GAAAGAGATCATAAAATTGTTGGTGGATCTACAGTTGATATTTCATCTTATCCATTTATG
GTTTCTGTTCAAAATAGAGGACGACATATTTGTGGAGGTTCCATTATAAAACCAAGATAT
GCCTTAACTGCAGCACATTGTTTATATGGAGGTTCAGCTTCATCATTTAGTGTTCGATCT
GATACATCTTTCAGAAATATGGGTGGAAGACTTCACAAAGCTAAAAGTATTAAAATTAAT
CCACAATATAACTCAAAAACTCATGATTATGATTCGGGTGTTATTGAAATTGGTGGTACT
TTTAGTGCTAACCCAGTACAGCTTGCAACTGTTTTGCCATCGAGTGGAAGCAGTGTCACA
GCAATTGGTTGGGGTGAATTAATAGAAAATGGTCCTTTACCTTTTAAATTACAAGCAGTT
GGACTAAATTTGATATCACAAGATCAATGTTCAAGATATTATCGTTCACATACATTTACT
GCTAGAATGATTTGTGCAGGAGTTAACGGTGGAGGAAAAGGTGGTCCACTTATTTCTAAT
GGAAATTTAATCGGCATCACATCTTTTGGTATTGGTTGTGCTCGAGCAAATTATCCAGGT
GTCTACTCAAATGTGCCAAGTTTATATAAATGGATCAACGATGCAACACCATAA

>g16629.t7 Gene=g16629 Length=237
MAFKFPFLLIFTTFFFFVQAERDHKIVGGSTVDISSYPFMVSVQNRGRHICGGSIIKPRY
ALTAAHCLYGGSASSFSVRSDTSFRNMGGRLHKAKSIKINPQYNSKTHDYDSGVIEIGGT
FSANPVQLATVLPSSGSSVTAIGWGELIENGPLPFKLQAVGLNLISQDQCSRYYRSHTFT
ARMICAGVNGGGKGGPLISNGNLIGITSFGIGCARANYPGVYSNVPSLYKWINDATP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g16629.t7 CDD cd00190 Tryp_SPc 26 234 2.34897E-67
7 g16629.t7 Gene3D G3DSA:2.40.10.10 - 26 226 1.6E-53
6 g16629.t7 Gene3D G3DSA:2.40.10.10 - 38 227 1.6E-53
2 g16629.t7 PANTHER PTHR24276 POLYSERASE-RELATED 19 234 9.2E-59
3 g16629.t7 PANTHER PTHR24276:SF78 AT20289P-RELATED 19 234 9.2E-59
1 g16629.t7 Pfam PF00089 Trypsin 26 232 3.9E-46
9 g16629.t7 Phobius SIGNAL_PEPTIDE Signal peptide region 1 20 -
10 g16629.t7 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 4 -
11 g16629.t7 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 5 16 -
12 g16629.t7 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 17 20 -
8 g16629.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 21 237 -
14 g16629.t7 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 62 67 -
16 g16629.t7 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 26 237 25.573
15 g16629.t7 SMART SM00020 trypsin_2 25 232 1.0E-53
4 g16629.t7 SUPERFAMILY SSF50494 Trypsin-like serine proteases 20 236 6.85E-61
5 g16629.t7 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