Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Serine protease 2.

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 g3425 g3425.t16 TTS g3425.t16 25307620 25307620
chr_3 g3425 g3425.t16 isoform g3425.t16 25307703 25308886
chr_3 g3425 g3425.t16 exon g3425.t16.exon1 25307703 25307962
chr_3 g3425 g3425.t16 cds g3425.t16.CDS1 25307865 25307962
chr_3 g3425 g3425.t16 exon g3425.t16.exon2 25308036 25308327
chr_3 g3425 g3425.t16 cds g3425.t16.CDS2 25308036 25308327
chr_3 g3425 g3425.t16 exon g3425.t16.exon3 25308384 25308504
chr_3 g3425 g3425.t16 cds g3425.t16.CDS3 25308384 25308504
chr_3 g3425 g3425.t16 exon g3425.t16.exon4 25308573 25308775
chr_3 g3425 g3425.t16 cds g3425.t16.CDS4 25308573 25308775
chr_3 g3425 g3425.t16 exon g3425.t16.exon5 25308830 25308886
chr_3 g3425 g3425.t16 cds g3425.t16.CDS5 25308830 25308886
chr_3 g3425 g3425.t16 TSS g3425.t16 25308935 25308935

Sequences

>g3425.t16 Gene=g3425 Length=933
ATGGAAAAGTTTTTACTTTTATTAACAATTATTTTATTTTTTGCTGTTATCTTAGAAGCT
GGTGTAACACATGTGCTACCTAATCAATTGCCATTATTCGAAAGAAAAGTGCAAGGAAGA
ATTGTCGGTGGTTCGCGACCAAGTACAACTCAATTTCCCTATACAGTGTCAGTTCGCGCA
TTTAATGGAACATCAACCTCGTTTTGCGGTGGTTCTATAATTTCTTACAATTTTGTTCTG
ACTGCTGCACATTGCACTCGTGGCTATCAAGATTTCGAAATTGGTGTAGGCTCAATAGTT
CTTCAAACTCCATTTTTTAAAATACTAACTTATGGTGGAGCAATAGAACATCCATATTTT
AATCCAACAAATTTAAATAATGACATTTCACTCATAGAAGTTCCAACTATTGCCCAAAAT
GTTCCGTCTGTTGTTCCAGTTTTACTTCCTAAAAGATCACAAGCCGATAAACCTTTTATT
GGAATGCAAGTGACAGTATCAGGATTTGGAAGAACATCGGACGCATCACAAAGTGTTTCA
CCATTCATGGAATATGTTCAACTAAAAATTATCTCTAATAAAGATTGTGCAGGAACATAT
GGTAGAAGAATTGTTACTGATGATGTTATTTGTGCTAAGGGAATTGATAAAAACTTTAAT
GCTTGTATTGGAGATTCAGGAGGTCCTTTAACAATGAAAGAAGCAGGAAATCATGTTCAA
CTTGGTATTGTGTCTTTTGTTAGTTCAAGAGGCTGTGCTATTGGTGAGTAAATAAATTTT
TCACATCTGATATTTAAAACTTTTTTCATTTTGATGAGTTCTAAAATTTTTTTATTATTT
TTCTTTTCCTCAGGTGATCCTTCAGGTTATACAAAAGTAGGAAAATATCTCGATTGGATT
TCTGCCAAAACTGGAATAATAATTCGCAATTAA

>g3425.t16 Gene=g3425 Length=256
MEKFLLLLTIILFFAVILEAGVTHVLPNQLPLFERKVQGRIVGGSRPSTTQFPYTVSVRA
FNGTSTSFCGGSIISYNFVLTAAHCTRGYQDFEIGVGSIVLQTPFFKILTYGGAIEHPYF
NPTNLNNDISLIEVPTIAQNVPSVVPVLLPKRSQADKPFIGMQVTVSGFGRTSDASQSVS
PFMEYVQLKIISNKDCAGTYGRRIVTDDVICAKGIDKNFNACIGDSGGPLTMKEAGNHVQ
LGIVSFVSSRGCAIGE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g3425.t16 CDD cd00190 Tryp_SPc 41 253 1.42505E-53
9 g3425.t16 Gene3D G3DSA:2.40.10.10 - 33 256 2.3E-49
2 g3425.t16 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 35 255 7.0E-53
3 g3425.t16 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 35 255 7.0E-53
6 g3425.t16 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 70 85 1.2E-11
5 g3425.t16 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 124 138 1.2E-11
4 g3425.t16 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 219 231 1.2E-11
1 g3425.t16 Pfam PF00089 Trypsin 41 255 4.5E-41
11 g3425.t16 Phobius SIGNAL_PEPTIDE Signal peptide region 1 20 -
12 g3425.t16 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
13 g3425.t16 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 15 -
14 g3425.t16 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 16 20 -
10 g3425.t16 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 21 256 -
18 g3425.t16 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 80 85 -
19 g3425.t16 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 220 231 -
20 g3425.t16 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 41 256 23.524
17 g3425.t16 SMART SM00020 trypsin_2 40 254 2.6E-39
7 g3425.t16 SUPERFAMILY SSF50494 Trypsin-like serine proteases 4 254 5.19E-57
8 g3425.t16 SignalP_EUK SignalP-noTM SignalP-noTM 1 20 -
16 g3425.t16 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 5 27 -

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