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.t17 isoform g16610.t17 10217630 10221173
chr_4 g16610 g16610.t17 exon g16610.t17.exon1 10217630 10217884
chr_4 g16610 g16610.t17 cds g16610.t17.CDS1 10217630 10217884
chr_4 g16610 g16610.t17 exon g16610.t17.exon2 10217938 10217989
chr_4 g16610 g16610.t17 cds g16610.t17.CDS2 10217938 10217989
chr_4 g16610 g16610.t17 exon g16610.t17.exon3 10220395 10220811
chr_4 g16610 g16610.t17 cds g16610.t17.CDS3 10220395 10220811
chr_4 g16610 g16610.t17 exon g16610.t17.exon4 10220863 10220955
chr_4 g16610 g16610.t17 cds g16610.t17.CDS4 10220863 10220955
chr_4 g16610 g16610.t17 exon g16610.t17.exon5 10221049 10221173
chr_4 g16610 g16610.t17 cds g16610.t17.CDS5 10221049 10221173
chr_4 g16610 g16610.t17 TTS g16610.t17 10221355 10221355
chr_4 g16610 g16610.t17 TSS g16610.t17 NA NA

Sequences

>g16610.t17 Gene=g16610 Length=942
ATGAAGATTTTAATTTTTGCTACTCTAATTTCTTTAGCAAATTGTTGGGTTAATTTGCCA
GATGAAGTAAAAACTGCAAAATCTATGGATGAACATCCAACGATTCAAAAGATTTTAAGA
GAAAAAAATCCAGAGTTGTTCAATGAAAATGGCGAATTTATTAATAAAACTCCATTCATA
GTTGGAGGATCGAATGCAACTTTAGGCCAATTTCCACATCAGGCGTTGCTTTTTACTTAT
GTTGACGCTAAATCTATTTATCTTTGTGGTGGCTCTTTGATTCGTTATAATTGGGTTTTG
ACAGTAACAGTATATCTTGGAATCATTGATTCTTATAATGGACCTGCACAATGGGGCGCA
GATGTGACTTCAAAATCAGATGTAAAAATCCATTCAAGTTACAATGACGAATTCCTTATC
AACGATATTGCCATGATTTATTTAAGAACTGCAACTGAATCGCTTCTTAGTACTCCTTAT
GTCAAAACAATTACGTTGCCAATGAACCATACCAAAACAAATTTAGATGGAATGAATGGA
ACTGCAAGTGGTTTTGGCAAGACAAGTGACATTAGTGATTCATCGCAGTTTTTGAAATAT
GTTTCACTCTACATCACTTCCAATTTAGTTTGTAGAAATCTCTATGGATCAGATGTTGTC
AAAGATACAAACATTTGTGTTGCAACAACAACTACTGCGGCCACTTGCTCCGGAGATTCT
GGAGGACCATTGACCACTGTTCTTAATGGAACAAATTATGTTATTGGAATCGTTTCTTTT
GGTTTTAAAGATTCGTGTCAATTGGGTTATCCTGCTGGATTCACAAGAGTTACGAGTTAT
CTTGGATGGATTGAAAGTCGAATTAACATGTCACCAAAATCTGTTGCTTGCAATGTATTA
CTTTTGATCATCATTCAAATTTTTTTGTTTTTTCGTAAATAA

>g16610.t17 Gene=g16610 Length=313
MKILIFATLISLANCWVNLPDEVKTAKSMDEHPTIQKILREKNPELFNENGEFINKTPFI
VGGSNATLGQFPHQALLFTYVDAKSIYLCGGSLIRYNWVLTVTVYLGIIDSYNGPAQWGA
DVTSKSDVKIHSSYNDEFLINDIAMIYLRTATESLLSTPYVKTITLPMNHTKTNLDGMNG
TASGFGKTSDISDSSQFLKYVSLYITSNLVCRNLYGSDVVKDTNICVATTTTAATCSGDS
GGPLTTVLNGTNYVIGIVSFGFKDSCQLGYPAGFTRVTSYLGWIESRINMSPKSVACNVL
LLIIIQIFLFFRK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g16610.t17 CDD cd00190 Tryp_SPc 60 286 1.0246E-53
9 g16610.t17 Gene3D G3DSA:2.40.10.10 - 54 290 2.2E-47
2 g16610.t17 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 27 291 1.4E-52
3 g16610.t17 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 27 291 1.4E-52
5 g16610.t17 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 90 105 9.1E-7
6 g16610.t17 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 138 152 9.1E-7
4 g16610.t17 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 233 245 9.1E-7
1 g16610.t17 Pfam PF00089 Trypsin 60 284 1.4E-33
12 g16610.t17 Phobius SIGNAL_PEPTIDE Signal peptide region 1 15 -
13 g16610.t17 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
14 g16610.t17 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 10 -
16 g16610.t17 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 11 15 -
11 g16610.t17 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 16 292 -
15 g16610.t17 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 293 311 -
10 g16610.t17 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 312 313 -
20 g16610.t17 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 234 245 -
21 g16610.t17 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 60 289 23.474
19 g16610.t17 SMART SM00020 trypsin_2 59 284 6.7E-48
7 g16610.t17 SUPERFAMILY SSF50494 Trypsin-like serine proteases 58 289 5.51E-57
8 g16610.t17 SignalP_EUK SignalP-noTM SignalP-noTM 1 15 -
18 g16610.t17 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 294 311 -

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