Gene loci information

Transcript annotation

  • This transcript has been annotated as Serine protease snake.

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_1 g13907 g13907.t2 TSS g13907.t2 33254844 33254844
chr_1 g13907 g13907.t2 isoform g13907.t2 33254871 33257071
chr_1 g13907 g13907.t2 exon g13907.t2.exon1 33254871 33254940
chr_1 g13907 g13907.t2 cds g13907.t2.CDS1 33254871 33254940
chr_1 g13907 g13907.t2 exon g13907.t2.exon2 33255198 33255374
chr_1 g13907 g13907.t2 cds g13907.t2.CDS2 33255198 33255374
chr_1 g13907 g13907.t2 exon g13907.t2.exon3 33255851 33255967
chr_1 g13907 g13907.t2 cds g13907.t2.CDS3 33255851 33255967
chr_1 g13907 g13907.t2 exon g13907.t2.exon4 33256023 33256049
chr_1 g13907 g13907.t2 cds g13907.t2.CDS4 33256023 33256049
chr_1 g13907 g13907.t2 exon g13907.t2.exon5 33256100 33256388
chr_1 g13907 g13907.t2 cds g13907.t2.CDS5 33256100 33256388
chr_1 g13907 g13907.t2 exon g13907.t2.exon6 33256450 33256709
chr_1 g13907 g13907.t2 cds g13907.t2.CDS6 33256450 33256709
chr_1 g13907 g13907.t2 exon g13907.t2.exon7 33256840 33256965
chr_1 g13907 g13907.t2 cds g13907.t2.CDS7 33256840 33256901
chr_1 g13907 g13907.t2 exon g13907.t2.exon8 33257026 33257071
chr_1 g13907 g13907.t2 TTS g13907.t2 33257197 33257197

Sequences

>g13907.t2 Gene=g13907 Length=1112
ATGATCATTAGAAATCGAGTTTGTATTTTACTTCAAATTCTCTGCTGTGCATTTGTAAAT
TCTCAACTCGTGGGAGAAGAGTGTATCAGAGATTACGACAATGCACGAGGTATTTGTGTT
TCGCATAGAGAATGCAAAAGAGCGAGAGAAGAACATGCATTGGGAATTCCGTTGACTTAT
TGTTCGTTTTTGGATGGCGTGACGAACATTTGTTGTCCGCAATTTGAAAAAAGAAAAAGT
GCATCAAAATGTGAAGAATATGGGGATCTAACAAAGAAGAAAGATTGTGTGTGGACGAGT
TTAATTCAGAATCATGAACCGCAATGTTTTGAAACTTTCACATGCAATCCAAGCACACCA
CTGATTTATGGTGGTGATATTGCAAAAGGAGGTGAATTTCCTCATATGGTTGCAATTGGA
TGGCAAAAATTGAATACAATTTCATTTGATTGTGGTGGAAGTTTGATTTCTGAACGTTAT
GTTCTAACAGCAGCGCATTGTGAAAAATCTGACAATATAAGGCCATCATTTGTAAGACTT
GGCGATCAAAATGTGAAAACACGTGATGATGGAATGATAGAAATTGACATTGCTATAGAA
GATTTTATTGTTCACCAAGATTATTCATCAATAACTCATAAAAATGATATTGCCCTCATT
AGAATGGCACAAGAAGTAAAATTCTCAGAATCCATTAGACCCGCTTGTTTGTGGCAGACA
AGCAGTGTCAATTTCACGAAGTTGATCGCTTGTGGCTGGGGTGCTCTTGAGTATGCTTCT
CAGACGAGTGATGAGTTGAGAAAAGTTGAACTTGACGTTGTCAATAATACTTTATGTAAT
CAACTGTTAAGGGAATCATTGGCTCTTTCTAATAATAAATTGATTGGTGACTCACAGTTA
TGTGCTGGATTACTTAAGGGCGGTAAAGATACGTGTCAAGATTTTCTTCAGGACCACTTC
ATGTTTCAATTCGTGATGGAAATCCTTGCCAATTTCATATAGTTGGTATAACAAGTTATG
GATCAATTCTCTGTGGAACTCCAAATACTCCTGCTGTTTATACTAGAGTTTCTGCTTATT
TGGATTGGATTGAAAGCATCGTATGGCGATAG

>g13907.t2 Gene=g13907 Length=333
MIIRNRVCILLQILCCAFVNSQLVGEECIRDYDNARGICVSHRECKRAREEHALGIPLTY
CSFLDGVTNICCPQFEKRKSASKCEEYGDLTKKKDCVWTSLIQNHEPQCFETFTCNPSTP
LIYGGDIAKGGEFPHMVAIGWQKLNTISFDCGGSLISERYVLTAAHCEKSDNIRPSFVRL
GDQNVKTRDDGMIEIDIAIEDFIVHQDYSSITHKNDIALIRMAQEVKFSESIRPACLWQT
SSVNFTKLIACGWGALEYASQTSDELRKVELDVVNNTLCNQLLRESLALSNNKLIGDSQL
CAGLLKGGKDTCQDFLQDHFMFQFVMEILANFI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g13907.t2 CDD cd00190 Tryp_SPc 122 313 1.6572E-58
9 g13907.t2 Gene3D G3DSA:2.40.10.10 - 122 313 7.5E-50
8 g13907.t2 Gene3D G3DSA:2.40.10.10 - 134 234 7.5E-50
2 g13907.t2 PANTHER PTHR24260:SF107 EG:BACR7A4.3 PROTEIN-RELATED 6 313 1.3E-56
3 g13907.t2 PANTHER PTHR24260 - 6 313 1.3E-56
4 g13907.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 152 167 3.2E-8
5 g13907.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 212 226 3.2E-8
1 g13907.t2 Pfam PF00089 Trypsin 122 313 3.4E-37
11 g13907.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 25 -
12 g13907.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 6 -
13 g13907.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 7 18 -
14 g13907.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 19 25 -
10 g13907.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 26 333 -
17 g13907.t2 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 162 167 -
19 g13907.t2 ProSiteProfiles PS51888 Clip domain profile. 27 72 6.65
18 g13907.t2 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 122 313 20.572
16 g13907.t2 SMART SM00020 trypsin_2 121 316 2.2E-38
6 g13907.t2 SUPERFAMILY SSF50494 Trypsin-like serine proteases 114 313 6.33E-55
7 g13907.t2 SignalP_EUK SignalP-noTM SignalP-noTM 1 21 -

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