Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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_3 g305 g305.t3 TSS g305.t3 2635059 2635059
chr_3 g305 g305.t3 isoform g305.t3 2635683 2636456
chr_3 g305 g305.t3 exon g305.t3.exon1 2635683 2636240
chr_3 g305 g305.t3 cds g305.t3.CDS1 2635724 2636240
chr_3 g305 g305.t3 exon g305.t3.exon2 2636305 2636456
chr_3 g305 g305.t3 cds g305.t3.CDS2 2636305 2636456
chr_3 g305 g305.t3 TTS g305.t3 2636551 2636551

Sequences

>g305.t3 Gene=g305 Length=710
TTGTGGGTGGTGAACCTGCTAAAGCGAATGAATTTCCTCATATGGCTGCATTAGGATGGC
GTGGATTAGATAGATATGAATTTAATTGTGGAGCATCATTAATATCTGACAGATATGTTC
TGACTGCCGCTCATTGTGAAAAATGGAATGGTAAATTACCTGATATAGTTCGTTTAGGTG
ATTTAGATTTAAGATCAAATTCTGATGGTGTGCAAGAACAAGATTTTCCTGTCGAAGCTT
TCATTCGTCATGAAAATTATGATTCAAGACAAAAGAAGAATGACATTGCTGTTGTTCGTA
TGAGATATAATGTAAGAGCATGGCAAAAAAATATAAGACCGGCATGTCTTTGGTCTCAAC
AAAATATAAATCAGAATCAAGTTATTGCTACAGGATATGGAAGTACTGGATATGCAGAAG
GAAATAGCGATAAACTTTTAAAAGTTAATCTATTTGTCTCTAACACCTATAGATGTGGAG
AAATAAATATTGATAACACTCAAATTTGTGCAGGTGATGAAAGAAATAATAGAGATACAT
GCCAAGGTGACAGCGGAGGTCCACTTCAAATCACTCTTCCAAATAATAAGTGCACATTTT
ATATTGTTGGAATCACAAGTTTTGGTGAAAATGTTTGTGGTTATAGCAATGCAGTTTATA
CACGAGTGAGTGCTTATATAGATTGGATAGAAAGAATAGTTTGGGGATAA

>g305.t3 Gene=g305 Length=222
MAALGWRGLDRYEFNCGASLISDRYVLTAAHCEKWNGKLPDIVRLGDLDLRSNSDGVQEQ
DFPVEAFIRHENYDSRQKKNDIAVVRMRYNVRAWQKNIRPACLWSQQNINQNQVIATGYG
STGYAEGNSDKLLKVNLFVSNTYRCGEINIDNTQICAGDERNNRDTCQGDSGGPLQITLP
NNKCTFYIVGITSFGENVCGYSNAVYTRVSAYIDWIERIVWG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g305.t3 CDD cd00190 Tryp_SPc 1 219 1.61737E-65
9 g305.t3 Gene3D G3DSA:2.40.10.10 - 1 217 9.8E-58
8 g305.t3 Gene3D G3DSA:2.40.10.10 - 101 209 9.8E-58
2 g305.t3 PANTHER PTHR24260 - 1 221 1.4E-64
3 g305.t3 PANTHER PTHR24260:SF91 FI18411P1-RELATED 1 221 1.4E-64
4 g305.t3 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 17 32 4.1E-13
6 g305.t3 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 77 91 4.1E-13
5 g305.t3 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 164 176 4.1E-13
1 g305.t3 Pfam PF00089 Trypsin 13 216 9.9E-44
11 g305.t3 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 27 32 -
12 g305.t3 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 165 176 -
14 g305.t3 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 1 221 24.059
13 g305.t3 SMART SM00020 trypsin_2 1 216 1.1E-53
7 g305.t3 SUPERFAMILY SSF50494 Trypsin-like serine proteases 1 221 9.23E-61

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.

Raw TPM values