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.t24 isoform g16610.t24 10217630 10221173
chr_4 g16610 g16610.t24 exon g16610.t24.exon1 10217630 10217884
chr_4 g16610 g16610.t24 cds g16610.t24.CDS1 10217630 10217884
chr_4 g16610 g16610.t24 exon g16610.t24.exon2 10217938 10217985
chr_4 g16610 g16610.t24 cds g16610.t24.CDS2 10217938 10217985
chr_4 g16610 g16610.t24 exon g16610.t24.exon3 10220358 10220811
chr_4 g16610 g16610.t24 cds g16610.t24.CDS3 10220358 10220811
chr_4 g16610 g16610.t24 exon g16610.t24.exon4 10220863 10220955
chr_4 g16610 g16610.t24 cds g16610.t24.CDS4 10220863 10220955
chr_4 g16610 g16610.t24 exon g16610.t24.exon5 10221068 10221173
chr_4 g16610 g16610.t24 cds g16610.t24.CDS5 10221068 10221138
chr_4 g16610 g16610.t24 TTS g16610.t24 10221355 10221355
chr_4 g16610 g16610.t24 TSS g16610.t24 NA NA

Sequences

>g16610.t24 Gene=g16610 Length=956
ATGAAGATTTTAATTTTTGCTACTCTAATTTCTTTAGCAAATTGTTGGGTTAATTTGCCA
GATGAAGTAAAAACTGCAAAATCTATGGATGAACATCCAACGATTCAAAAGATTTTAAGA
GAAAAAAATCCAGAGTTGTTCAATGAAAATGGCGAATTTATTAATAAAACTCCATTCATA
GTTGGAGGATCGAATGCAACTTTAGGCCAATTTCCACATCAGGCGTTGCTTTTTACTTAT
GTTGACGCTAAATCTATTTATCTTTGTGGTGGCTCTTTGATTCGTTATAATTGGGTTTTG
ACAGCAGCACATTGTGTCTATATTCCTTACATAAAAGTAGCAGTATATCTTGGAATCATT
GATTCTTATAATGGACCTGCACAATGGGGCGCAGATGTGACTTCAAAATCAGATGTAAAA
ATCCATTCAAGTTACAATGACGAATTCCTTATCAACGATATTGCCATGATTTATTTAAGA
ACTGCAACTGAATCGCTTCTTAGTACTCCTTATGTCAAAACAATTACGTTGCCAATGAAC
CATACCAAAACAAATTTAGATGGAATGAATGGAACTGCAAGTGGTTTTGGCAAGACAAGT
GACATTAGTGATTCATCGCAGTTTTTGAAATATGTTTCACTCTACATCACTTCCAATTTA
GTTTGTAGAAATCTCTATGGATCAGATGTTGTCAAAGATACAAACATTTGTGTTGCAACA
ACAACTACTGCGGCCACTTGCTCCGGAGATTCTGGAGGACCATTGACCACTGTTCTTAAT
GGAACAAATTATGTTATTGGAATCGTTTCTTTTGGTTTTAAAGATTCGTGTCAATTGGGT
TATCCTGCTGTTATCTTGGATGGATTGAAAGTCGAATTAACATGTCACCAAAATCTGTTG
CTTGCAATGTATTACTTTTGATCATCATTCAAATTTTTTTGTTTTTTCGTAAATAA

>g16610.t24 Gene=g16610 Length=306
MKILIFATLISLANCWVNLPDEVKTAKSMDEHPTIQKILREKNPELFNENGEFINKTPFI
VGGSNATLGQFPHQALLFTYVDAKSIYLCGGSLIRYNWVLTAAHCVYIPYIKVAVYLGII
DSYNGPAQWGADVTSKSDVKIHSSYNDEFLINDIAMIYLRTATESLLSTPYVKTITLPMN
HTKTNLDGMNGTASGFGKTSDISDSSQFLKYVSLYITSNLVCRNLYGSDVVKDTNICVAT
TTTAATCSGDSGGPLTTVLNGTNYVIGIVSFGFKDSCQLGYPAVILDGLKVELTCHQNLL
LAMYYF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g16610.t24 CDD cd00190 Tryp_SPc 60 284 6.6598E-52
8 g16610.t24 Gene3D G3DSA:2.40.10.10 - 54 288 2.3E-49
2 g16610.t24 PANTHER PTHR24260 - 41 286 4.0E-52
3 g16610.t24 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 90 105 6.9E-12
4 g16610.t24 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 149 163 6.9E-12
5 g16610.t24 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 244 256 6.9E-12
1 g16610.t24 Pfam PF00089 Trypsin 60 284 1.3E-37
10 g16610.t24 Phobius SIGNAL_PEPTIDE Signal peptide region 1 15 -
11 g16610.t24 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
12 g16610.t24 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 10 -
13 g16610.t24 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 11 15 -
9 g16610.t24 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 16 306 -
16 g16610.t24 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 100 105 -
17 g16610.t24 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 245 256 -
18 g16610.t24 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 60 306 23.867
15 g16610.t24 SMART SM00020 trypsin_2 59 285 3.3E-42
6 g16610.t24 SUPERFAMILY SSF50494 Trypsin-like serine proteases 58 285 4.24E-57
7 g16610.t24 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