Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Chymotrypsin BI.

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_4 g16608 g16608.t3 TSS g16608.t3 10213400 10213400
chr_4 g16608 g16608.t3 isoform g16608.t3 10213446 10215366
chr_4 g16608 g16608.t3 exon g16608.t3.exon1 10213446 10213805
chr_4 g16608 g16608.t3 exon g16608.t3.exon2 10214454 10214901
chr_4 g16608 g16608.t3 cds g16608.t3.CDS1 10214481 10214901
chr_4 g16608 g16608.t3 exon g16608.t3.exon3 10214953 10215045
chr_4 g16608 g16608.t3 cds g16608.t3.CDS2 10214953 10215045
chr_4 g16608 g16608.t3 exon g16608.t3.exon4 10215299 10215366
chr_4 g16608 g16608.t3 cds g16608.t3.CDS3 10215299 10215366
chr_4 g16608 g16608.t3 TTS g16608.t3 10215505 10215505

Sequences

>g16608.t3 Gene=g16608 Length=969
ATGAAGATTTTAATATTTGTTACTCTAATTTCACTAGCAAGTTGTTGGGTTAATTTGCCA
GATGAGGCAAAAACTGCAAAGTCTATGGATGAACATCCAACGATTCAAAAGATTTTAAGA
GAAAAAAATCCAGAGTTGTTTAATGAAAATGGCGAAATTATTAAAAAAACTCCATTCATA
ATTGGAGGATCGAATGCAACTTTCGGGCAATTTCCACACCAAGCATTGCTTTTTACGTAT
GTTAGCGAGACTTCTGTAAGCATTTTTCTTTTTAATAAAAACTGAAGACTGAAATTTTTA
AATTTTTCTTAGGTCTATCTTTGTGGTGGTTCATTGATTCGTTATAATTGGGTTTTGACA
GCAGCTCATTGTGTCTATATTCCTTTCATGAAAGTAGCAGTATATCTTGGAATCATTGAT
TCTTACTATGGTCCAGCATATTGGGGCGCAGATGTGACTTCAACAGATGTAAAAATCCAT
TCAGGTTACAATGACAATTACCTTACCAATGATATTGCTATGATTTATTTGAGAACTGCA
ACTGAATCAATTCTTAATGCTTACATTGGAACCATTCCATTGCCTAAAAGTCATGTCAAT
ACGAATTTAGATGGAAGGAGTTCAATTGTGAGTGGTTTTGGCAAGACAAGTGATAACAGT
ACTTCATCGCAATTTTTAAAATATGTTCAACTCTATATAACTTCCAATTCAGTTTGTGAA
CAAGTCTATGGACCAAATTATGTCAGAGATACAAACATTTGTGTTGCAACAACAAATACT
GCGGCCACTTGTTCAGGAGATTCTGGAGGACCATTGACCACTGTTCTTGATGGAACAAAT
TATGTTGTTGGAATCGTTTCGTTTGGTGCTGCTATTTCATGTGAAATGGGCTATCCTGCT
GGATTCACAAGAGTCACAAGCTTCATTGGATGGATAGAAGATCGATTCACTTTACCACCA
GCATTCTAA

>g16608.t3 Gene=g16608 Length=193
MKVAVYLGIIDSYYGPAYWGADVTSTDVKIHSGYNDNYLTNDIAMIYLRTATESILNAYI
GTIPLPKSHVNTNLDGRSSIVSGFGKTSDNSTSSQFLKYVQLYITSNSVCEQVYGPNYVR
DTNICVATTNTAATCSGDSGGPLTTVLDGTNYVVGIVSFGAAISCEMGYPAGFTRVTSFI
GWIEDRFTLPPAF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g16608.t3 CDD cd00190 Tryp_SPc 5 185 3.87968E-44
6 g16608.t3 Gene3D G3DSA:2.40.10.10 - 3 184 1.9E-39
5 g16608.t3 Gene3D G3DSA:2.40.10.10 - 64 179 1.9E-39
2 g16608.t3 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 23 187 4.5E-40
3 g16608.t3 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 23 187 4.5E-40
1 g16608.t3 Pfam PF00089 Trypsin 23 183 6.8E-29
8 g16608.t3 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 133 144 -
10 g16608.t3 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 1 188 18.03
9 g16608.t3 SMART SM00020 trypsin_2 2 183 1.4E-19
4 g16608.t3 SUPERFAMILY SSF50494 Trypsin-like serine proteases 3 185 3.14E-43

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