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_4 g15881 g15881.t2 TSS g15881.t2 7160590 7160590
chr_4 g15881 g15881.t2 isoform g15881.t2 7160689 7162412
chr_4 g15881 g15881.t2 exon g15881.t2.exon1 7160689 7160932
chr_4 g15881 g15881.t2 cds g15881.t2.CDS1 7160689 7160932
chr_4 g15881 g15881.t2 exon g15881.t2.exon2 7160987 7161242
chr_4 g15881 g15881.t2 cds g15881.t2.CDS2 7160987 7161242
chr_4 g15881 g15881.t2 exon g15881.t2.exon3 7161300 7161470
chr_4 g15881 g15881.t2 cds g15881.t2.CDS3 7161300 7161470
chr_4 g15881 g15881.t2 exon g15881.t2.exon4 7161548 7161711
chr_4 g15881 g15881.t2 cds g15881.t2.CDS4 7161548 7161677
chr_4 g15881 g15881.t2 exon g15881.t2.exon5 7162338 7162412
chr_4 g15881 g15881.t2 TTS g15881.t2 7162477 7162477

Sequences

>g15881.t2 Gene=g15881 Length=910
ATGAAAGTTTTCATCATTTTTTCAATTCTCTTTGCATCAACTTTGGCATTTCCTTATGAA
AGTTCAATAAATGAAAATCCTCTGTTGATGTATAACTCAATTCGATTGCCAATGGAACCC
GAATCAAGAATTGTTGGTGGTGATCAACATGACATTTACAAATATCCTTACATTTGCTCT
CTTCAATGGAATGGCTCACATCGTTGTGGTGCAAATATTATTAGTCACAGATTTTTAGTG
ACAGCTGCTCACTGCACAATTGGTCTCACTCCAACTCTTTTAACTGTTCGTTGCGGATCA
TCACGTTTTGATAGTGGTGGAAGAGTTTATAGAATTTCAACTATAATTAATCATCCAGAT
TATAATTCAGCAACAATTGACTATGATTTTGCTGTCATTGAAACTGAGGAAGAAATTGAA
TTTAACGAAGCAACTCAACCTATTAGACTTGCTGATCAAGATGAAGAATTACCACATGGA
CATTGCATGAAAACACTTGGCTGGGGAAATACAATGGATCCAAGTCAAACACGCGACTAT
CTACGCATTGTTTATGTGCCAAAAGTTTTTCTTGAAGAGTGTAGAAGATTGTATAGCACT
ATTAACGCAGCTGTAACTGAAAGAATGATTTGTGCTGGATTTAGTGAAGGTGGTCATGAT
GCATGCCAAGGGGATTCTGGTGGCCCTCTGGCTGATGGCAGTTATGATGATGTACGATGC
AGATTTCATGGTAAAAGATTTGCAGCACAACCAAGAGCAGCTGAAGGAAGACTTGAAAAA
CTTTATGGAATCGTTAGGTAAGACAATTCTTTTATCTACATCTAATGAACGAAAATTCCC
TGGAGTCTATTCAAGAGTGGCTTCAGTTAGTAATTGGATTAAAAGACACGCTCATATTAA
AGATGACTAA

>g15881.t2 Gene=g15881 Length=266
MKVFIIFSILFASTLAFPYESSINENPLLMYNSIRLPMEPESRIVGGDQHDIYKYPYICS
LQWNGSHRCGANIISHRFLVTAAHCTIGLTPTLLTVRCGSSRFDSGGRVYRISTIINHPD
YNSATIDYDFAVIETEEEIEFNEATQPIRLADQDEELPHGHCMKTLGWGNTMDPSQTRDY
LRIVYVPKVFLEECRRLYSTINAAVTERMICAGFSEGGHDACQGDSGGPLADGSYDDVRC
RFHGKRFAAQPRAAEGRLEKLYGIVR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g15881.t2 CDD cd00190 Tryp_SPc 44 265 5.52633E-62
9 g15881.t2 Gene3D G3DSA:2.40.10.10 - 44 235 9.2E-52
10 g15881.t2 Gene3D G3DSA:2.40.10.10 - 56 147 9.2E-52
2 g15881.t2 PANTHER PTHR24276 POLYSERASE-RELATED 29 232 2.9E-62
3 g15881.t2 PANTHER PTHR24276:SF83 GH13245P2-RELATED 29 232 2.9E-62
6 g15881.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 70 85 8.4E-11
5 g15881.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 125 139 8.4E-11
4 g15881.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 219 231 8.4E-11
1 g15881.t2 Pfam PF00089 Trypsin 44 232 6.9E-45
12 g15881.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 16 -
13 g15881.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
14 g15881.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 11 -
15 g15881.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 12 16 -
11 g15881.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 17 266 -
19 g15881.t2 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 80 85 -
20 g15881.t2 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 220 231 -
21 g15881.t2 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 44 266 24.218
18 g15881.t2 SMART SM00020 trypsin_2 43 265 4.4E-43
7 g15881.t2 SUPERFAMILY SSF50494 Trypsin-like serine proteases 5 234 1.75E-60
8 g15881.t2 SignalP_EUK SignalP-noTM SignalP-noTM 1 16 -
17 g15881.t2 SignalP_GRAM_NEGATIVE 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