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.t2 isoform g16397.t2 9330819 9337367
chr_4 g16397 g16397.t2 exon g16397.t2.exon1 9330819 9331081
chr_4 g16397 g16397.t2 exon g16397.t2.exon2 9331141 9331288
chr_4 g16397 g16397.t2 exon g16397.t2.exon3 9331356 9331473
chr_4 g16397 g16397.t2 exon g16397.t2.exon4 9331547 9331619
chr_4 g16397 g16397.t2 exon g16397.t2.exon5 9336206 9336380
chr_4 g16397 g16397.t2 cds g16397.t2.CDS1 9336209 9336380
chr_4 g16397 g16397.t2 exon g16397.t2.exon6 9336435 9336589
chr_4 g16397 g16397.t2 cds g16397.t2.CDS2 9336435 9336589
chr_4 g16397 g16397.t2 exon g16397.t2.exon7 9336649 9336776
chr_4 g16397 g16397.t2 cds g16397.t2.CDS3 9336649 9336776
chr_4 g16397 g16397.t2 exon g16397.t2.exon8 9336840 9336990
chr_4 g16397 g16397.t2 cds g16397.t2.CDS4 9336840 9336990
chr_4 g16397 g16397.t2 exon g16397.t2.exon9 9337059 9337367
chr_4 g16397 g16397.t2 cds g16397.t2.CDS5 9337059 9337367
chr_4 g16397 g16397.t2 TSS g16397.t2 9337406 9337406
chr_4 g16397 g16397.t2 TTS g16397.t2 NA NA

Sequences

>g16397.t2 Gene=g16397 Length=1520
ATGAAACTTTTCCTTCTCGCGATCCTCGCCGTTGGCGCTCTTGCCCAGGAGAACTATGAG
GGCCCAGAGTACGCTCCAATTGATCCATCATCAATCATTCCTGTTCAGGAAATGCCCGGT
TTCTGGGATGACAAGACCGAATTCCCAGCATGGATGAAGTCACCAGTCAATGTCCGTGAT
CGTCGTATTGTCGGTGGTGTTGAAGTTGTTCCACACAGCCATCCATACCAAGTTGCCCTT
CACATTCAATTCGGTGGTGGTACTGGTCTCTGCGGTGGTTCAGTTTTGACAATCCGTTCA
GTTTTGACTGCTGCTCATTGTCCAATTGGTTCAAGCTCAACCTTGGTCATTGCTGGTGCT
CACAACAGAAATGTCGTTGAAGCCAATCAACAACGTCGTACTGTTCCATCATCAGGCTAC
CGCATCCACGCCAACTACAATCCATCAAACTTGAACAATGATATTGCTGTTCTCATCACA
CCAACACCAAACTTTGCATGGACCACAGCTGTTCAACCAACACGTCGTCCAACTGGTGCT
CAACTTAGCGATCTTTTCGTTGGAGATAGATCACGTGCAACTGGCTGGGGTCGTGTTACC
AACACTGGTGCAACATCAGCTGTCCTCCGTAAGGCTTACAATACAATCATCACTAATGCT
GCTTGCGCTCAAGTTTATGGAACAAGCGTCGTAAATGCTGGAGTTATTTGCAAGGAAACA
GCTCAATCAAATCAAGGAACATGCAACGGAGATTCAGGCGGTGTGCTTTCAGTTGAACGT
CCTGGACACGCTCAATGGGTCCAAGTTGGTGTTACCTCATTTGGTGCTGCTGCTGGTTGT
GTTGCTGGATTCCCATCAGGCTTCGCTCGTATGACTCATTTCGATGCATGGATTAATGCC
AACCAAAATCCATAAAAACTGAGCAAGCAGCGTTAGTAATGACTGGATTGTAAGCCTTCG
AAGGACAGCTGATGTTGCACCAGTGTTAGTTTTGAGCGGGCAGTTTCACCGACGAAAAGT
TCACTAGCAAAAGCAGTTGGCATACGAGCGGCTTGAACATGTGCACCGAAGGCAAAGTTT
GGTGTTGGTGGATGAGGATAGCGATATCTTTCAAGTTTGATGGATTGTAGTTGGCGTGGA
GCGGTAGCCTGATGATGGAACAGTACGACGTTGTTGATTTGGTTCAACGACAATTTTCTG
TTGTGAGCACCAGCAATGACCAAGGTTGAGCTTGAACCAATTGGACAATGAGCAGCCGTC
AAAACTGAACGGATTGTCAAGACTGAACCACCGCAGAGACCAGTGCCAGTACCGAATTGC
ATGTGGAAGGGGCAACTTGGTATGGATGGCTGTGTGGAACAACTTCAACACCACGACAAT
TCTTGAGGCACGTGGATTTGGTGTGAAAACTTCTTTTGGAATTCACGATTGTCCCAGAAA
CCGGGAAATCTTCAACTGGGATGATTTCTGAGGCATCAAATGGAGCGTATTCTGGTCCAT
CATAGTTTTCCTGGGCAAGT

>g16397.t2 Gene=g16397 Length=304
MKLFLLAILAVGALAQENYEGPEYAPIDPSSIIPVQEMPGFWDDKTEFPAWMKSPVNVRD
RRIVGGVEVVPHSHPYQVALHIQFGGGTGLCGGSVLTIRSVLTAAHCPIGSSSTLVIAGA
HNRNVVEANQQRRTVPSSGYRIHANYNPSNLNNDIAVLITPTPNFAWTTAVQPTRRPTGA
QLSDLFVGDRSRATGWGRVTNTGATSAVLRKAYNTIITNAACAQVYGTSVVNAGVICKET
AQSNQGTCNGDSGGVLSVERPGHAQWVQVGVTSFGAAAGCVAGFPSGFARMTHFDAWINA
NQNP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g16397.t2 CDD cd00190 Tryp_SPc 63 301 1.19159E-55
9 g16397.t2 Gene3D G3DSA:2.40.10.10 - 57 303 1.7E-51
2 g16397.t2 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 58 300 3.0E-69
3 g16397.t2 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 58 300 3.0E-69
5 g16397.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 92 107 4.9E-8
4 g16397.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 150 164 4.9E-8
6 g16397.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 245 257 4.9E-8
1 g16397.t2 Pfam PF00089 Trypsin 63 298 4.1E-42
11 g16397.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 15 -
12 g16397.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
13 g16397.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 11 -
14 g16397.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 12 15 -
10 g16397.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 16 304 -
17 g16397.t2 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 102 107 -
18 g16397.t2 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 246 257 -
19 g16397.t2 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 63 303 25.422
16 g16397.t2 SMART SM00020 trypsin_2 62 298 1.4E-53
7 g16397.t2 SUPERFAMILY SSF50494 Trypsin-like serine proteases 55 301 1.89E-58
8 g16397.t2 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