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.t55 TTS g16397.t55 9336138 9336138
chr_4 g16397 g16397.t55 isoform g16397.t55 9336209 9337367
chr_4 g16397 g16397.t55 exon g16397.t55.exon1 9336209 9336409
chr_4 g16397 g16397.t55 cds g16397.t55.CDS1 9336407 9336409
chr_4 g16397 g16397.t55 exon g16397.t55.exon2 9336488 9336589
chr_4 g16397 g16397.t55 cds g16397.t55.CDS2 9336488 9336589
chr_4 g16397 g16397.t55 exon g16397.t55.exon3 9336649 9336776
chr_4 g16397 g16397.t55 cds g16397.t55.CDS3 9336649 9336776
chr_4 g16397 g16397.t55 exon g16397.t55.exon4 9336840 9336990
chr_4 g16397 g16397.t55 cds g16397.t55.CDS4 9336840 9336990
chr_4 g16397 g16397.t55 exon g16397.t55.exon5 9337059 9337367
chr_4 g16397 g16397.t55 cds g16397.t55.CDS5 9337059 9337367
chr_4 g16397 g16397.t55 TSS g16397.t55 9337406 9337406

Sequences

>g16397.t55 Gene=g16397 Length=891
ATGAAACTTTTCCTTCTCGCGATCCTCGCCGTTGGCGCTCTTGCCCAGGAGAACTATGAG
GGCCCAGAGTACGCTCCAATTGATCCATCATCAATCATTCCTGTTCAGGAAATGCCCGGT
TTCTGGGATGACAAGACCGAATTCCCAGCATGGATGAAGTCACCAGTCAATGTCCGTGAT
CGTCGTATTGTCGGTGGTGTTGAAGTTGTTCCACACAGCCATCCATACCAAGTTGCCCTT
CACATTCAATTCGGTGGTGGTACTGGTCTCTGCGGTGGTTCAGTTTTGACAATCCGTTCA
GTTTTGACTGCTGCTCATTGTCCAATTGGTTCAAGCTCAACCTTGGTCATTGCTGGTGCT
CACAACAGAAATGTCGTTGAAGCCAATCAACAACGTCGTACTGTTCCATCATCAGGCTAC
CGCATCCACGCCAACTACAATCCATCAAACTTGAACAATGATATTGCTGTTCTCATCACA
CCAACACCAAACTTTGCATGGACCACAGCTGTTCAACCAACACGTCGTCCAACTGGTGCT
CAACTTAGCGATCTTTTCGTTGGAGATAGATCACGTGCAACTGGCTGGGGTCGTGTTACC
AACACTGGTGCAACATCAGCTGTCCTCCGTAAGGCTTACAATACAATCATCACTAATGCT
GCTTGCGCTCAAGTTTATGGAACAAGCGTCTGATTTTATTTAATGAAATTTTTTAACAGC
AACGGAGATTCAGGCGGTGTGCTTTCAGTTGAACGTCCTGGACACGCTCAATGGGTCCAA
GTTGGTGTTACCTCATTTGGTGCTGCTGCTGGTTGTGTTGCTGGATTCCCATCAGGCTTC
GCTCGTATGACTCATTTCGATGCATGGATTAATGCCAACCAAAATCCATAA

>g16397.t55 Gene=g16397 Length=230
MKLFLLAILAVGALAQENYEGPEYAPIDPSSIIPVQEMPGFWDDKTEFPAWMKSPVNVRD
RRIVGGVEVVPHSHPYQVALHIQFGGGTGLCGGSVLTIRSVLTAAHCPIGSSSTLVIAGA
HNRNVVEANQQRRTVPSSGYRIHANYNPSNLNNDIAVLITPTPNFAWTTAVQPTRRPTGA
QLSDLFVGDRSRATGWGRVTNTGATSAVLRKAYNTIITNAACAQVYGTSV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g16397.t55 CDD cd00190 Tryp_SPc 63 227 7.92981E-37
7 g16397.t55 Gene3D G3DSA:2.40.10.10 - 64 227 6.7E-32
6 g16397.t55 Gene3D G3DSA:2.40.10.10 - 75 173 6.7E-32
2 g16397.t55 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 58 230 1.8E-44
3 g16397.t55 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 58 230 1.8E-44
1 g16397.t55 Pfam PF00089 Trypsin 63 228 2.8E-29
9 g16397.t55 Phobius SIGNAL_PEPTIDE Signal peptide region 1 15 -
10 g16397.t55 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
11 g16397.t55 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 11 -
12 g16397.t55 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 12 15 -
8 g16397.t55 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 16 230 -
14 g16397.t55 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 102 107 -
16 g16397.t55 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 63 230 16.491
15 g16397.t55 SMART SM00020 trypsin_2 62 227 5.4E-12
4 g16397.t55 SUPERFAMILY SSF50494 Trypsin-like serine proteases 55 228 5.83E-40
5 g16397.t55 SignalP_EUK SignalP-noTM SignalP-noTM 1 15 -

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