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.t6 isoform g16397.t6 9336127 9337367
chr_4 g16397 g16397.t6 exon g16397.t6.exon1 9336127 9336191
chr_4 g16397 g16397.t6 TTS g16397.t6 9336138 9336138
chr_4 g16397 g16397.t6 cds g16397.t6.CDS1 9336157 9336191
chr_4 g16397 g16397.t6 exon g16397.t6.exon2 9336250 9336380
chr_4 g16397 g16397.t6 cds g16397.t6.CDS2 9336250 9336380
chr_4 g16397 g16397.t6 exon g16397.t6.exon3 9336435 9336589
chr_4 g16397 g16397.t6 cds g16397.t6.CDS3 9336435 9336589
chr_4 g16397 g16397.t6 exon g16397.t6.exon4 9336649 9336776
chr_4 g16397 g16397.t6 cds g16397.t6.CDS4 9336649 9336776
chr_4 g16397 g16397.t6 exon g16397.t6.exon5 9336840 9336990
chr_4 g16397 g16397.t6 cds g16397.t6.CDS5 9336840 9336990
chr_4 g16397 g16397.t6 exon g16397.t6.exon6 9337059 9337367
chr_4 g16397 g16397.t6 cds g16397.t6.CDS6 9337059 9337367
chr_4 g16397 g16397.t6 TSS g16397.t6 9337406 9337406

Sequences

>g16397.t6 Gene=g16397 Length=939
ATGAAACTTTTCCTTCTCGCGATCCTCGCCGTTGGCGCTCTTGCCCAGGAGAACTATGAG
GGCCCAGAGTACGCTCCAATTGATCCATCATCAATCATTCCTGTTCAGGAAATGCCCGGT
TTCTGGGATGACAAGACCGAATTCCCAGCATGGATGAAGTCACCAGTCAATGTCCGTGAT
CGTCGTATTGTCGGTGGTGTTGAAGTTGTTCCACACAGCCATCCATACCAAGTTGCCCTT
CACATTCAATTCGGTGGTGGTACTGGTCTCTGCGGTGGTTCAGTTTTGACAATCCGTTCA
GTTTTGACTGCTGCTCATTGTCCAATTGGTTCAAGCTCAACCTTGGTCATTGCTGGTGCT
CACAACAGAAATGTCGTTGAAGCCAATCAACAACGTCGTACTGTTCCATCATCAGGCTAC
CGCATCCACGCCAACTACAATCCATCAAACTTGAACAATGATATTGCTGTTCTCATCACA
CCAACACCAAACTTTGCATGGACCACAGCTGTTCAACCAACACGTCGTCCAACTGGTGCT
CAACTTAGCGATCTTTTCGTTGGAGATAGATCACGTGCAACTGGCTGGGGTCGTGTTACC
AACACTGGTGCAACATCAGCTGTCCTCCGTAAGGCTTACAATACAATCATCACTAATGCT
GCTTGCGCTCAAGTTTATGGAACAAGCGTCGTAAATGCTGGAGTTATTTGCAAGGAAACA
GCTCAATCAAATCAAGGAACATGCAACGGAGATTCAGGCGGTGTGCTTTCAGTTGAACGT
CCTGGACACGCTCAATGGGTCCAAGTTGGTGTTACCTCATTTGGTGCTGCTGCTGGTTGT
GTTGCTGGATTCCCATCAGGCTTCGCTCGTATGATTAAATGGAATGAAGATCAAAAAAAA
AATTGTTAAATTAAATTCGAAATTTTTGCAAAACAAAAA

>g16397.t6 Gene=g16397 Length=302
MKLFLLAILAVGALAQENYEGPEYAPIDPSSIIPVQEMPGFWDDKTEFPAWMKSPVNVRD
RRIVGGVEVVPHSHPYQVALHIQFGGGTGLCGGSVLTIRSVLTAAHCPIGSSSTLVIAGA
HNRNVVEANQQRRTVPSSGYRIHANYNPSNLNNDIAVLITPTPNFAWTTAVQPTRRPTGA
QLSDLFVGDRSRATGWGRVTNTGATSAVLRKAYNTIITNAACAQVYGTSVVNAGVICKET
AQSNQGTCNGDSGGVLSVERPGHAQWVQVGVTSFGAAAGCVAGFPSGFARMIKWNEDQKK
NC

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g16397.t6 CDD cd00190 Tryp_SPc 63 294 2.49778E-52
9 g16397.t6 Gene3D G3DSA:2.40.10.10 - 57 299 6.6E-48
2 g16397.t6 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 58 294 2.5E-66
3 g16397.t6 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 58 294 2.5E-66
5 g16397.t6 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 92 107 4.9E-8
4 g16397.t6 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 150 164 4.9E-8
6 g16397.t6 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 245 257 4.9E-8
1 g16397.t6 Pfam PF00089 Trypsin 63 291 3.3E-40
11 g16397.t6 Phobius SIGNAL_PEPTIDE Signal peptide region 1 15 -
12 g16397.t6 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
13 g16397.t6 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 11 -
14 g16397.t6 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 12 15 -
10 g16397.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 16 302 -
17 g16397.t6 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 102 107 -
18 g16397.t6 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 246 257 -
19 g16397.t6 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 63 300 23.725
16 g16397.t6 SMART SM00020 trypsin_2 62 292 6.4E-45
7 g16397.t6 SUPERFAMILY SSF50494 Trypsin-like serine proteases 55 292 4.66E-55
8 g16397.t6 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