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.t9 isoform g16397.t9 9336127 9337367
chr_4 g16397 g16397.t9 exon g16397.t9.exon1 9336127 9336380
chr_4 g16397 g16397.t9 TTS g16397.t9 9336138 9336138
chr_4 g16397 g16397.t9 cds g16397.t9.CDS1 9336209 9336380
chr_4 g16397 g16397.t9 exon g16397.t9.exon2 9336435 9336589
chr_4 g16397 g16397.t9 cds g16397.t9.CDS2 9336435 9336589
chr_4 g16397 g16397.t9 exon g16397.t9.exon3 9336649 9336728
chr_4 g16397 g16397.t9 cds g16397.t9.CDS3 9336649 9336728
chr_4 g16397 g16397.t9 exon g16397.t9.exon4 9336840 9336990
chr_4 g16397 g16397.t9 cds g16397.t9.CDS4 9336840 9336990
chr_4 g16397 g16397.t9 exon g16397.t9.exon5 9337059 9337367
chr_4 g16397 g16397.t9 cds g16397.t9.CDS5 9337059 9337367
chr_4 g16397 g16397.t9 TSS g16397.t9 9337406 9337406

Sequences

>g16397.t9 Gene=g16397 Length=949
ATGAAACTTTTCCTTCTCGCGATCCTCGCCGTTGGCGCTCTTGCCCAGGAGAACTATGAG
GGCCCAGAGTACGCTCCAATTGATCCATCATCAATCATTCCTGTTCAGGAAATGCCCGGT
TTCTGGGATGACAAGACCGAATTCCCAGCATGGATGAAGTCACCAGTCAATGTCCGTGAT
CGTCGTATTGTCGGTGGTGTTGAAGTTGTTCCACACAGCCATCCATACCAAGTTGCCCTT
CACATTCAATTCGGTGGTGGTACTGGTCTCTGCGGTGGTTCAGTTTTGACAATCCGTTCA
GTTTTGACTGCTGCTCATTGTCCAATTGGTTCAAGCTCAACCTTGGTCATTGCTGGTGCT
CACAACAGAAATGTCGTTGAAGCCAATCAACAACGTCGTACTGTTCCATCATCAGGCTAC
CGCATCCACGCCAACTACAATCCATCAAACTTGAACAATGCTGTTCAACCAACACGTCGT
CCAACTGGTGCTCAACTTAGCGATCTTTTCGTTGGAGATAGATCACGTGCAACTGGCTGG
GGTCGTGTTACCAACACTGGTGCAACATCAGCTGTCCTCCGTAAGGCTTACAATACAATC
ATCACTAATGCTGCTTGCGCTCAAGTTTATGGAACAAGCGTCGTAAATGCTGGAGTTATT
TGCAAGGAAACAGCTCAATCAAATCAAGGAACATGCAACGGAGATTCAGGCGGTGTGCTT
TCAGTTGAACGTCCTGGACACGCTCAATGGGTCCAAGTTGGTGTTACCTCATTTGGTGCT
GCTGCTGGTTGTGTTGCTGGATTCCCATCAGGCTTCGCTCGTATGACTCATTTCGATGCA
TGGATTAATGCCAACCAAAATCCATAAAAAGTGAACATTCATTTTTAAATGGAATGAAGA
TCAAAAAAAAAATTGTTAAATTAAATTCGAAATTTTTGCAAAACAAAAA

>g16397.t9 Gene=g16397 Length=288
MKLFLLAILAVGALAQENYEGPEYAPIDPSSIIPVQEMPGFWDDKTEFPAWMKSPVNVRD
RRIVGGVEVVPHSHPYQVALHIQFGGGTGLCGGSVLTIRSVLTAAHCPIGSSSTLVIAGA
HNRNVVEANQQRRTVPSSGYRIHANYNPSNLNNAVQPTRRPTGAQLSDLFVGDRSRATGW
GRVTNTGATSAVLRKAYNTIITNAACAQVYGTSVVNAGVICKETAQSNQGTCNGDSGGVL
SVERPGHAQWVQVGVTSFGAAAGCVAGFPSGFARMTHFDAWINANQNP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g16397.t9 CDD cd00190 Tryp_SPc 63 285 2.95033E-49
6 g16397.t9 Gene3D G3DSA:2.40.10.10 - 63 146 1.7E-15
7 g16397.t9 Gene3D G3DSA:2.40.10.10 - 147 278 2.6E-26
2 g16397.t9 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 58 284 4.6E-59
3 g16397.t9 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 58 284 4.6E-59
1 g16397.t9 Pfam PF00089 Trypsin 63 282 2.3E-34
9 g16397.t9 Phobius SIGNAL_PEPTIDE Signal peptide region 1 15 -
10 g16397.t9 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
11 g16397.t9 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 11 -
12 g16397.t9 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 12 15 -
8 g16397.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 16 288 -
14 g16397.t9 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 102 107 -
15 g16397.t9 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 230 241 -
17 g16397.t9 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 63 287 23.106
16 g16397.t9 SMART SM00020 trypsin_2 62 282 1.6E-44
4 g16397.t9 SUPERFAMILY SSF50494 Trypsin-like serine proteases 55 285 5.83E-53
5 g16397.t9 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