Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Chymotrypsin BII.

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 g16398 g16398.t43 TSS g16398.t43 9340829 9340829
chr_4 g16398 g16398.t43 isoform g16398.t43 9340865 9342136
chr_4 g16398 g16398.t43 exon g16398.t43.exon1 9340865 9341153
chr_4 g16398 g16398.t43 exon g16398.t43.exon2 9341214 9341364
chr_4 g16398 g16398.t43 exon g16398.t43.exon3 9341430 9341554
chr_4 g16398 g16398.t43 cds g16398.t43.CDS1 9341495 9341554
chr_4 g16398 g16398.t43 exon g16398.t43.exon4 9341613 9341767
chr_4 g16398 g16398.t43 cds g16398.t43.CDS2 9341613 9341767
chr_4 g16398 g16398.t43 exon g16398.t43.exon5 9341830 9341997
chr_4 g16398 g16398.t43 cds g16398.t43.CDS3 9341830 9341997
chr_4 g16398 g16398.t43 exon g16398.t43.exon6 9342097 9342136
chr_4 g16398 g16398.t43 cds g16398.t43.CDS4 9342097 9342136
chr_4 g16398 g16398.t43 TTS g16398.t43 9342130 9342130

Sequences

>g16398.t43 Gene=g16398 Length=928
ATGAAACTCTTGCTTCTCGCACTTTTCGCTGCTGTGGCACTTGCCCAGGAAAACTATGAT
GGACCAGAATACGCTCCATTTGATGCCTCAGAAATCATCCCAGTTGAAGATTTCCCAGGT
TTCTGGACAATCGTGAATTCCCAAAAGAAGTTTTCACACCAAATCCACGTGCCTCAAGAA
TTGTCGGTGGTGTTGAAGTTGTTCCACACAGCCATCCATACCAAGTTGCCCTTCACATGC
AATTCGGTACTGGCACTGGTCTCTGCCGGTGGTTCAGTTTCTTTTGACCGCTGCTCATTG
TCCAATTGGTTCAAGCTCAACCTTGGTCATTGCTGGTGCTCACAACAGAAATGTCGTTGA
ACCAAATCAACAACGTCGTACTGTTCCATCATCAGGCTACCGCATCCACGCCAACTACAA
CCCATCAAACTTGAACAATGATATCGCTATCCTCATCACACCAACACCAAACTTTGCCTT
CGGTGCACATGTTCAAGCCGCTCGTATGCCAACTGCTTTTGCTAGTGAACTTTTCGTCGG
TGAAACTGCCCGCTCAACTGGATGGGGAAGAACAACTAACACTGGTGCAACCTCAGCTGT
CCTTCGTAAGGCTTACAATCCAGTCATTACTAATGCTGCTTGCTCAGCTGTCTATGGTGG
ATCAGTTGTAATTGCTTCAGTCATTTGCATTGCTACAAGCGGTGTCAACCAAGGAACATG
CAACGGTGACTCAGGCGGTGTCCTTTCAGTTCCAAGAGCTGGAGATACTCGTCCAATCCA
AATTGGTGTTACATCATTCGTCGCTGCAGCTGGTTGCGTTGCTGGATTCCCATCAGGCTT
CGCAAGAGTTACATCATTCCTTACCTGGATTAACAACAACCAAAATCCTGAAACATTTCT
GATTGCATTTGTTGTTTGGAAAGAAAAA

>g16398.t43 Gene=g16398 Length=141
MPTAFASELFVGETARSTGWGRTTNTGATSAVLRKAYNPVITNAACSAVYGGSVVIASVI
CIATSGVNQGTCNGDSGGVLSVPRAGDTRPIQIGVTSFVAAAGCVAGFPSGFARVTSFLT
WINNNQNPETFLIAFVVWKEK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g16398.t43 Gene3D G3DSA:2.40.10.10 - 2 118 7.8E-26
2 g16398.t43 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 6 126 1.4E-33
3 g16398.t43 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 6 126 1.4E-33
1 g16398.t43 Pfam PF00089 Trypsin 8 122 5.6E-18
6 g16398.t43 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 70 81 -
8 g16398.t43 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 1 127 13.472
5 g16398.t43 SMART SM00020 trypsin_2 2 122 0.0015
4 g16398.t43 SUPERFAMILY SSF50494 Trypsin-like serine proteases 9 127 1.66E-28

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