Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Chymotrypsin BI.

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 g16610 g16610.t18 isoform g16610.t18 10217630 10221173
chr_4 g16610 g16610.t18 exon g16610.t18.exon1 10217630 10217884
chr_4 g16610 g16610.t18 cds g16610.t18.CDS1 10217630 10217884
chr_4 g16610 g16610.t18 exon g16610.t18.exon2 10217938 10217976
chr_4 g16610 g16610.t18 cds g16610.t18.CDS2 10217938 10217976
chr_4 g16610 g16610.t18 exon g16610.t18.exon3 10220358 10220811
chr_4 g16610 g16610.t18 cds g16610.t18.CDS3 10220358 10220811
chr_4 g16610 g16610.t18 exon g16610.t18.exon4 10220863 10220955
chr_4 g16610 g16610.t18 cds g16610.t18.CDS4 10220863 10220955
chr_4 g16610 g16610.t18 exon g16610.t18.exon5 10221049 10221173
chr_4 g16610 g16610.t18 cds g16610.t18.CDS5 10221049 10221173
chr_4 g16610 g16610.t18 TTS g16610.t18 10221355 10221355
chr_4 g16610 g16610.t18 TSS g16610.t18 NA NA

Sequences

>g16610.t18 Gene=g16610 Length=966
ATGAAGATTTTAATTTTTGCTACTCTAATTTCTTTAGCAAATTGTTGGGTTAATTTGCCA
GATGAAGTAAAAACTGCAAAATCTATGGATGAACATCCAACGATTCAAAAGATTTTAAGA
GAAAAAAATCCAGAGTTGTTCAATGAAAATGGCGAATTTATTAATAAAACTCCATTCATA
GTTGGAGGATCGAATGCAACTTTAGGCCAATTTCCACATCAGGCGTTGCTTTTTACTTAT
GTTGACGCTAAATCTATTTATCTTTGTGGTGGCTCTTTGATTCGTTATAATTGGGCAGCA
CATTGTGTCTATATTCCTTACATAAAAGTAGCAGTATATCTTGGAATCATTGATTCTTAT
AATGGACCTGCACAATGGGGCGCAGATGTGACTTCAAAATCAGATGTAAAAATCCATTCA
AGTTACAATGACGAATTCCTTATCAACGATATTGCCATGATTTATTTAAGAACTGCAACT
GAATCGCTTCTTAGTACTCCTTATGTCAAAACAATTACGTTGCCAATGAACCATACCAAA
ACAAATTTAGATGGAATGAATGGAACTGCAAGTGGTTTTGGCAAGACAAGTGACATTAGT
GATTCATCGCAGTTTTTGAAATATGTTTCACTCTACATCACTTCCAATTTAGTTTGTAGA
AATCTCTATGGATCAGATGTTGTCAAAGATACAAACATTTGTGTTGCAACAACAACTACT
GCGGCCACTTGCTCCGGAGATTCTGGAGGACCATTGACCACTGTTCTTAATGGAACAAAT
TATGTTATTGGAATCGTTTCTTTTGGTTTTAAAGATTCGTGTCAATTGGGTTATCCTGCT
GGATTCACAAGAGTTACGAGTTATCTTGGATGGATTGAAAGTCGAATTAACATGTCACCA
AAATCTGTTGCTTGCAATGTATTACTTTTGATCATCATTCAAATTTTTTTGTTTTTTCGT
AAATAA

>g16610.t18 Gene=g16610 Length=321
MKILIFATLISLANCWVNLPDEVKTAKSMDEHPTIQKILREKNPELFNENGEFINKTPFI
VGGSNATLGQFPHQALLFTYVDAKSIYLCGGSLIRYNWAAHCVYIPYIKVAVYLGIIDSY
NGPAQWGADVTSKSDVKIHSSYNDEFLINDIAMIYLRTATESLLSTPYVKTITLPMNHTK
TNLDGMNGTASGFGKTSDISDSSQFLKYVSLYITSNLVCRNLYGSDVVKDTNICVATTTT
AATCSGDSGGPLTTVLNGTNYVIGIVSFGFKDSCQLGYPAGFTRVTSYLGWIESRINMSP
KSVACNVLLLIIIQIFLFFRK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g16610.t18 CDD cd00190 Tryp_SPc 60 294 2.14978E-54
9 g16610.t18 Gene3D G3DSA:2.40.10.10 - 54 298 1.1E-49
2 g16610.t18 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 27 299 1.2E-54
3 g16610.t18 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 27 299 1.2E-54
5 g16610.t18 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 90 105 3.1E-5
4 g16610.t18 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 146 160 3.1E-5
6 g16610.t18 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 241 253 3.1E-5
1 g16610.t18 Pfam PF00089 Trypsin 60 292 4.7E-36
12 g16610.t18 Phobius SIGNAL_PEPTIDE Signal peptide region 1 15 -
13 g16610.t18 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
14 g16610.t18 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 10 -
16 g16610.t18 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 11 15 -
11 g16610.t18 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 16 300 -
15 g16610.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 301 319 -
10 g16610.t18 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 320 321 -
20 g16610.t18 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 242 253 -
21 g16610.t18 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 60 297 23.532
19 g16610.t18 SMART SM00020 trypsin_2 59 292 2.6E-48
7 g16610.t18 SUPERFAMILY SSF50494 Trypsin-like serine proteases 58 297 3.39E-58
8 g16610.t18 SignalP_EUK SignalP-noTM SignalP-noTM 1 15 -
18 g16610.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 302 319 -

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