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.t3 TSS g13907.t3 33254844 33254844
chr_1 g13907 g13907.t3 isoform g13907.t3 33254871 33257071
chr_1 g13907 g13907.t3 exon g13907.t3.exon1 33254871 33254940
chr_1 g13907 g13907.t3 cds g13907.t3.CDS1 33254871 33254940
chr_1 g13907 g13907.t3 exon g13907.t3.exon2 33255198 33255374
chr_1 g13907 g13907.t3 cds g13907.t3.CDS2 33255198 33255374
chr_1 g13907 g13907.t3 exon g13907.t3.exon3 33255860 33255967
chr_1 g13907 g13907.t3 cds g13907.t3.CDS3 33255860 33255967
chr_1 g13907 g13907.t3 exon g13907.t3.exon4 33256023 33256049
chr_1 g13907 g13907.t3 cds g13907.t3.CDS4 33256023 33256049
chr_1 g13907 g13907.t3 exon g13907.t3.exon5 33256100 33256388
chr_1 g13907 g13907.t3 cds g13907.t3.CDS5 33256100 33256388
chr_1 g13907 g13907.t3 exon g13907.t3.exon6 33256450 33256709
chr_1 g13907 g13907.t3 cds g13907.t3.CDS6 33256450 33256709
chr_1 g13907 g13907.t3 exon g13907.t3.exon7 33256851 33256965
chr_1 g13907 g13907.t3 cds g13907.t3.CDS7 33256851 33256965
chr_1 g13907 g13907.t3 exon g13907.t3.exon8 33257026 33257071
chr_1 g13907 g13907.t3 cds g13907.t3.CDS8 33257026 33257071
chr_1 g13907 g13907.t3 TTS g13907.t3 33257197 33257197

Sequences

>g13907.t3 Gene=g13907 Length=1092
ATGATCATTAGAAATCGAGTTTGTATTTTACTTCAAATTCTCTGCTGTGCATTTGTAAAT
TCTCAACTCGTGGGAGAAGAGTGTATCAGAGATTACGACAATGCACGAGGTATTTGTGTT
TCGCATAGAGAATGCAAAAGAGCGAGAGAAGAACATGCATTGGGAATTCCGTTGACTTAT
TGTTCGTTTTTGGATGGCGTGACGAACATTTGTTGTCCGCAATTTGAAAAAAGAAAAAGT
GCATCAAAATATGGGGATCTAACAAAGAAGAAAGATTGTGTGTGGACGAGTTTAATTCAG
AATCATGAACCGCAATGTTTTGAAACTTTCACATGCAATCCAAGCACACCACTGATTTAT
GGTGGTGATATTGCAAAAGGAGGTGAATTTCCTCATATGGTTGCAATTGGATGGCAAAAA
TTGAATACAATTTCATTTGATTGTGGTGGAAGTTTGATTTCTGAACGTTATGTTCTAACA
GCAGCGCATTGTGAAAAATCTGACAATATAAGGCCATCATTTGTAAGACTTGGCGATCAA
AATGTGAAAACACGTGATGATGGAATGATAGAAATTGACATTGCTATAGAAGATTTTATT
GTTCACCAAGATTATTCATCAATAACTCATAAAAATGATATTGCCCTCATTAGAATGGCA
CAAGAAGTAAAATTCTCAGAATCCATTAGACCCGCTTGTTTGTGGCAGACAAGCAGTGTC
AATTTCACGAAGTTGATCGCTTGTGGCTGGGGTGCTCTTGAGTATGCTTCTCAGACGAGT
GATGAGTTGAGAAAAGTTGAACTTGACGTTGTCAATAATACTTTATGTAATCAACTGTTA
AGGGAATCATTGGCTCTTTCTAATAATAAATTGATTGGTGACTCACAGTTATGTGCTGGA
TTACTTAAGGGCGGTAAAGATACGTGTCAAGGACCACTTCATGTTTCAATTCGTGATGGA
AATCCTTGCCAATTTCATATAGTTGGTATAACAAGTTATGGATCAATTCTCTGTGGAACT
CCAAATACTCCTGCTGTTTATACTAGAGTTTCTGCTTATTTGGATTGGATTGAAAGCATC
GTATGGCGATAG

>g13907.t3 Gene=g13907 Length=363
MIIRNRVCILLQILCCAFVNSQLVGEECIRDYDNARGICVSHRECKRAREEHALGIPLTY
CSFLDGVTNICCPQFEKRKSASKYGDLTKKKDCVWTSLIQNHEPQCFETFTCNPSTPLIY
GGDIAKGGEFPHMVAIGWQKLNTISFDCGGSLISERYVLTAAHCEKSDNIRPSFVRLGDQ
NVKTRDDGMIEIDIAIEDFIVHQDYSSITHKNDIALIRMAQEVKFSESIRPACLWQTSSV
NFTKLIACGWGALEYASQTSDELRKVELDVVNNTLCNQLLRESLALSNNKLIGDSQLCAG
LLKGGKDTCQGPLHVSIRDGNPCQFHIVGITSYGSILCGTPNTPAVYTRVSAYLDWIESI
VWR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g13907.t3 CDD cd00190 Tryp_SPc 119 360 4.10387E-77
9 g13907.t3 Gene3D G3DSA:2.40.10.10 - 119 350 2.3E-65
8 g13907.t3 Gene3D G3DSA:2.40.10.10 - 131 358 2.3E-65
2 g13907.t3 PANTHER PTHR24260:SF107 EG:BACR7A4.3 PROTEIN-RELATED 6 363 1.1E-74
3 g13907.t3 PANTHER PTHR24260 - 6 363 1.1E-74
4 g13907.t3 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 149 164 3.7E-8
5 g13907.t3 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 209 223 3.7E-8
1 g13907.t3 Pfam PF00089 Trypsin 119 357 1.3E-47
11 g13907.t3 Phobius SIGNAL_PEPTIDE Signal peptide region 1 25 -
12 g13907.t3 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 6 -
13 g13907.t3 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 7 18 -
14 g13907.t3 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 19 25 -
10 g13907.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 26 363 -
17 g13907.t3 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 159 164 -
19 g13907.t3 ProSiteProfiles PS51888 Clip domain profile. 27 72 6.65
18 g13907.t3 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 119 362 27.496
16 g13907.t3 SMART SM00020 trypsin_2 118 357 1.0E-72
6 g13907.t3 SUPERFAMILY SSF50494 Trypsin-like serine proteases 111 362 1.13E-72
7 g13907.t3 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.

## Warning: Removed 1 row(s) containing missing values (geom_path).

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