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.t17 TTS g3425.t17 25307620 25307620
chr_3 g3425 g3425.t17 isoform g3425.t17 25308036 25308886
chr_3 g3425 g3425.t17 exon g3425.t17.exon1 25308036 25308327
chr_3 g3425 g3425.t17 cds g3425.t17.CDS1 25308037 25308327
chr_3 g3425 g3425.t17 exon g3425.t17.exon2 25308384 25308504
chr_3 g3425 g3425.t17 cds g3425.t17.CDS2 25308384 25308504
chr_3 g3425 g3425.t17 exon g3425.t17.exon3 25308573 25308775
chr_3 g3425 g3425.t17 cds g3425.t17.CDS3 25308573 25308775
chr_3 g3425 g3425.t17 exon g3425.t17.exon4 25308830 25308886
chr_3 g3425 g3425.t17 cds g3425.t17.CDS4 25308830 25308886
chr_3 g3425 g3425.t17 TSS g3425.t17 25308935 25308935

Sequences

>g3425.t17 Gene=g3425 Length=673
ATGGAAAAGTTTTTACTTTTATTAACAATTATTTTATTTTTTGCTGTTATCTTAGAAGCT
GGTGTAACACATGTGCTACCTAATCAATTGCCATTATTCGAAAGAAAAGTGCAAGGAAGA
ATTGTCGGTGGTTCGCGACCAAGTACAACTCAATTTCCCTATACAGTGTCAGTTCGCGCA
TTTAATGGAACATCAACCTCGTTTTGCGGTGGTTCTATAATTTCTTACAATTTTGTTCTG
ACTGCTGCACATTGCACTCGTGGCTATCAAGATTTCGAAATTGGTGTAGGCTCAATAGTT
CTTCAAACTCCATTTTTTAAAATACTAACTTATGGTGGAGCAATAGAACATCCATATTTT
AATCCAACAAATTTAAATAATGACATTTCACTCATAGAAGTTCCAACTATTGCCCAAAAT
GTTCCGTCTGTTGTTCCAGTTTTACTTCCTAAAAGATCACAAGCCGATAAACCTTTTATT
GGAATGCAAGTGACAGTATCAGGATTTGGAAGAACATCGGACGCATCACAAAGTGTTTCA
CCATTCATGGAATATGTTCAACTAAAAATTATCTCTAATAAAGATTGTGCAGGAACATAT
GGTAGAAGAATTGTTACTGATGATGTTATTTGTGCTAAGGGAATTGATAAAAACTTTAAT
GCTTGTATTGGAG

>g3425.t17 Gene=g3425 Length=224
MEKFLLLLTIILFFAVILEAGVTHVLPNQLPLFERKVQGRIVGGSRPSTTQFPYTVSVRA
FNGTSTSFCGGSIISYNFVLTAAHCTRGYQDFEIGVGSIVLQTPFFKILTYGGAIEHPYF
NPTNLNNDISLIEVPTIAQNVPSVVPVLLPKRSQADKPFIGMQVTVSGFGRTSDASQSVS
PFMEYVQLKIISNKDCAGTYGRRIVTDDVICAKGIDKNFNACIG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g3425.t17 CDD cd00190 Tryp_SPc 41 222 1.71025E-40
8 g3425.t17 Gene3D G3DSA:2.40.10.10 - 33 224 1.3E-37
2 g3425.t17 PANTHER PTHR24260 - 35 222 5.5E-39
3 g3425.t17 PANTHER PTHR24260:SF90 AT07769P-RELATED 35 222 5.5E-39
5 g3425.t17 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 70 85 1.1E-5
4 g3425.t17 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 124 138 1.1E-5
1 g3425.t17 Pfam PF00089 Trypsin 41 224 3.2E-31
10 g3425.t17 Phobius SIGNAL_PEPTIDE Signal peptide region 1 20 -
11 g3425.t17 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
12 g3425.t17 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 15 -
13 g3425.t17 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 16 20 -
9 g3425.t17 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 21 224 -
17 g3425.t17 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 80 85 -
18 g3425.t17 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 41 224 18.465
16 g3425.t17 SMART SM00020 trypsin_2 40 223 1.2E-13
6 g3425.t17 SUPERFAMILY SSF50494 Trypsin-like serine proteases 4 224 2.62E-45
7 g3425.t17 SignalP_EUK SignalP-noTM SignalP-noTM 1 20 -
15 g3425.t17 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