Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Trypsin II-P29.

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_3 g919 g919.t11 TTS g919.t11 6862025 6862025
chr_3 g919 g919.t11 isoform g919.t11 6862146 6863474
chr_3 g919 g919.t11 exon g919.t11.exon1 6862146 6862515
chr_3 g919 g919.t11 cds g919.t11.CDS1 6862250 6862515
chr_3 g919 g919.t11 exon g919.t11.exon2 6862683 6862789
chr_3 g919 g919.t11 cds g919.t11.CDS2 6862683 6862789
chr_3 g919 g919.t11 exon g919.t11.exon3 6862844 6862985
chr_3 g919 g919.t11 cds g919.t11.CDS3 6862844 6862985
chr_3 g919 g919.t11 exon g919.t11.exon4 6863219 6863359
chr_3 g919 g919.t11 cds g919.t11.CDS4 6863219 6863359
chr_3 g919 g919.t11 exon g919.t11.exon5 6863420 6863474
chr_3 g919 g919.t11 cds g919.t11.CDS5 6863420 6863474
chr_3 g919 g919.t11 TSS g919.t11 6863485 6863485

Sequences

>g919.t11 Gene=g919 Length=815
ATGTTCCTAAGAATTTTGACATTATTTTTGTGCTTTGCAGTTGTTCTTTCAGCTCCTCAA
CAAATTGAAAGGAAAATTTTAGGAGGTGAAGAAAATGCTTTAGGTGAAATTCCTTATGTT
GTTTCAATCACAATTTTTACTGGTTTACATATTTGTTCTGGTGCAATTATCAGTGATTGG
TGGACGATAACGGCAGCACATTGTATTTTTGGTCGAGGACCAAATACAGTTGTTGTTCGA
CCTGGAAGAATTCGTCTTGACGTAAATTCAATGGAAGATCGACAAGGAAGTGTTTTGATA
ACTCATCCAAATTATGTTGCCGAAATTTTAGAAAACGACATAGGATTGATTCAAGTTTCT
CGAGCATTTGTTTTCAATGTCAATATTCAACCAATCGCTTTGAGTGATAGTTTTGTGGGC
GGTGGAATTGCTGCTGCTGTATCAGGTTGGGGAACACTCACGCCTGGTGGAATTAATCAT
AATTTTCTTCTAACACTTCAAACTTCAACACTATCAAATGCTGATTGTCAATCACGTCAT
ACAAGTCAAAATGCAGCACTGATAAGAGATGATACAATTTGTACAAATAATCTAGTTGGT
GAAGGATTTTGTAATCGAGCTTTTGGGTCGCCTTTGGTCAGTGATTCAAAATTAATTGCT
ATCGCTTCATGGAATGTTCCTTGTGCTTTGGGCTATCCTGTAAGTAGTTAATATTTTCTA
ATTGAATTTAAAATCAATTTTATAATTTTTAGGATGTTTATTCGAGAATTTTTACAAGTC
TTGATTGGATAAGAACAGTAACTGGAATAAATTAA

>g919.t11 Gene=g919 Length=236
MFLRILTLFLCFAVVLSAPQQIERKILGGEENALGEIPYVVSITIFTGLHICSGAIISDW
WTITAAHCIFGRGPNTVVVRPGRIRLDVNSMEDRQGSVLITHPNYVAEILENDIGLIQVS
RAFVFNVNIQPIALSDSFVGGGIAAAVSGWGTLTPGGINHNFLLTLQTSTLSNADCQSRH
TSQNAALIRDDTICTNNLVGEGFCNRAFGSPLVSDSKLIAIASWNVPCALGYPVSS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g919.t11 CDD cd00190 Tryp_SPc 26 233 3.94964E-44
10 g919.t11 Gene3D G3DSA:2.40.10.10 - 26 230 2.1E-40
9 g919.t11 Gene3D G3DSA:2.40.10.10 - 38 128 2.1E-40
2 g919.t11 PANTHER PTHR24276 POLYSERASE-RELATED 9 232 8.5E-38
3 g919.t11 PANTHER PTHR24276:SF78 AT20289P-RELATED 9 232 8.5E-38
6 g919.t11 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 53 68 2.8E-6
4 g919.t11 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 109 123 2.8E-6
5 g919.t11 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 201 213 2.8E-6
1 g919.t11 Pfam PF00089 Trypsin 26 231 7.3E-33
12 g919.t11 Phobius SIGNAL_PEPTIDE Signal peptide region 1 24 -
13 g919.t11 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 4 -
14 g919.t11 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 5 16 -
15 g919.t11 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 17 24 -
11 g919.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 25 236 -
18 g919.t11 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 63 68 -
19 g919.t11 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 26 229 20.689
17 g919.t11 SMART SM00020 trypsin_2 25 234 9.0E-24
7 g919.t11 SUPERFAMILY SSF50494 Trypsin-like serine proteases 1 233 7.43E-50
8 g919.t11 SignalP_EUK SignalP-TM SignalP-TM 1 17 -

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