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 g16397 g16397.t67 TTS g16397.t67 9336138 9336138
chr_4 g16397 g16397.t67 isoform g16397.t67 9336209 9337367
chr_4 g16397 g16397.t67 exon g16397.t67.exon1 9336209 9336380
chr_4 g16397 g16397.t67 cds g16397.t67.CDS1 9336209 9336380
chr_4 g16397 g16397.t67 exon g16397.t67.exon2 9336435 9336589
chr_4 g16397 g16397.t67 cds g16397.t67.CDS2 9336435 9336589
chr_4 g16397 g16397.t67 exon g16397.t67.exon3 9336649 9336776
chr_4 g16397 g16397.t67 cds g16397.t67.CDS3 9336649 9336776
chr_4 g16397 g16397.t67 exon g16397.t67.exon4 9336881 9336990
chr_4 g16397 g16397.t67 cds g16397.t67.CDS4 9336881 9336929
chr_4 g16397 g16397.t67 exon g16397.t67.exon5 9337059 9337367
chr_4 g16397 g16397.t67 TSS g16397.t67 9337406 9337406

Sequences

>g16397.t67 Gene=g16397 Length=874
ATGAAACTTTTCCTTCTCGCGATCCTCGCCGTTGGCGCTCTTGCCCAGGAGAACTATGAG
GGCCCAGAGTACGCTCCAATTGATCCATCATCAATCATTCCTGTTCAGGAAATGCCCGGT
TTCTGGGATGACAAGACCGAATTCCCAGCATGGATGAAGTCACCAGTCAATGTCCGTGAT
CGTCGTATTGTCGGTGGTGTTGAAGTTGTTCCACACAGCCATCCATACCAAGTTGCCCTT
CACATTCAATTCGGTGGTGGTACTGGTCTCTGCGGTGGTTCAGTTTTGACAATCCGTTCA
GTTTTGACTGCTGCTCATTGTCCAATTGGTTCAAGCTCAACCTTGGTCATTGCTGGTGCT
CACAACAGAAATGTCGTTGAAGCCAATCAACAACGTCGTACTGTTCCATCATCAGGCTAA
TATTGCTGTTCTCATCACACCAACACCAAACTTTGCATGGACCACAGCTGTTCAACCAAC
ACGTCGTCCAACTGGTGCTCAACTTAGCGATCTTTTCGTTGGAGATAGATCACGTGCAAC
TGGCTGGGGTCGTGTTACCAACACTGGTGCAACATCAGCTGTCCTCCGTAAGGCTTACAA
TACAATCATCACTAATGCTGCTTGCGCTCAAGTTTATGGAACAAGCGTCGTAAATGCTGG
AGTTATTTGCAAGGAAACAGCTCAATCAAATCAAGGAACATGCAACGGAGATTCAGGCGG
TGTGCTTTCAGTTGAACGTCCTGGACACGCTCAATGGGTCCAAGTTGGTGTTACCTCATT
TGGTGCTGCTGCTGGTTGTGTTGCTGGATTCCCATCAGGCTTCGCTCGTATGACTCATTT
CGATGCATGGATTAATGCCAACCAAAATCCATAA

>g16397.t67 Gene=g16397 Length=167
MSLKPINNVVLFHHQANIAVLITPTPNFAWTTAVQPTRRPTGAQLSDLFVGDRSRATGWG
RVTNTGATSAVLRKAYNTIITNAACAQVYGTSVVNAGVICKETAQSNQGTCNGDSGGVLS
VERPGHAQWVQVGVTSFGAAAGCVAGFPSGFARMTHFDAWINANQNP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g16397.t67 Gene3D G3DSA:2.40.10.10 - 14 162 4.9E-28
7 g16397.t67 Gene3D G3DSA:2.40.10.10 - 38 157 4.9E-28
2 g16397.t67 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 15 163 1.3E-30
3 g16397.t67 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 15 163 1.3E-30
1 g16397.t67 Pfam PF00089 Trypsin 25 161 3.0E-19
6 g16397.t67 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 109 120 -
9 g16397.t67 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 10 166 14.509
5 g16397.t67 SMART SM00020 trypsin_2 5 161 7.5E-6
4 g16397.t67 SUPERFAMILY SSF50494 Trypsin-like serine proteases 12 164 2.23E-30

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