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.t2 TSS g16610.t2 10210914 10210914
chr_4 g16610 g16610.t2 isoform g16610.t2 10210926 10221173
chr_4 g16610 g16610.t2 exon g16610.t2.exon1 10210926 10210940
chr_4 g16610 g16610.t2 exon g16610.t2.exon2 10217611 10217884
chr_4 g16610 g16610.t2 cds g16610.t2.CDS1 10217630 10217884
chr_4 g16610 g16610.t2 exon g16610.t2.exon3 10217938 10217985
chr_4 g16610 g16610.t2 cds g16610.t2.CDS2 10217938 10217985
chr_4 g16610 g16610.t2 exon g16610.t2.exon4 10220358 10220811
chr_4 g16610 g16610.t2 cds g16610.t2.CDS3 10220358 10220811
chr_4 g16610 g16610.t2 exon g16610.t2.exon5 10220863 10220955
chr_4 g16610 g16610.t2 cds g16610.t2.CDS4 10220863 10220955
chr_4 g16610 g16610.t2 exon g16610.t2.exon6 10221049 10221173
chr_4 g16610 g16610.t2 cds g16610.t2.CDS5 10221049 10221173
chr_4 g16610 g16610.t2 TTS g16610.t2 10221355 10221355

Sequences

>g16610.t2 Gene=g16610 Length=1009
AAATTTCCAACTGTTCAGTAGCAAAAAGAACAAAATGAAGATTTTAATTTTTGCTACTCT
AATTTCTTTAGCAAATTGTTGGGTTAATTTGCCAGATGAAGTAAAAACTGCAAAATCTAT
GGATGAACATCCAACGATTCAAAAGATTTTAAGAGAAAAAAATCCAGAGTTGTTCAATGA
AAATGGCGAATTTATTAATAAAACTCCATTCATAGTTGGAGGATCGAATGCAACTTTAGG
CCAATTTCCACATCAGGCGTTGCTTTTTACTTATGTTGACGCTAAATCTATTTATCTTTG
TGGTGGCTCTTTGATTCGTTATAATTGGGTTTTGACAGCAGCACATTGTGTCTATATTCC
TTACATAAAAGTAGCAGTATATCTTGGAATCATTGATTCTTATAATGGACCTGCACAATG
GGGCGCAGATGTGACTTCAAAATCAGATGTAAAAATCCATTCAAGTTACAATGACGAATT
CCTTATCAACGATATTGCCATGATTTATTTAAGAACTGCAACTGAATCGCTTCTTAGTAC
TCCTTATGTCAAAACAATTACGTTGCCAATGAACCATACCAAAACAAATTTAGATGGAAT
GAATGGAACTGCAAGTGGTTTTGGCAAGACAAGTGACATTAGTGATTCATCGCAGTTTTT
GAAATATGTTTCACTCTACATCACTTCCAATTTAGTTTGTAGAAATCTCTATGGATCAGA
TGTTGTCAAAGATACAAACATTTGTGTTGCAACAACAACTACTGCGGCCACTTGCTCCGG
AGATTCTGGAGGACCATTGACCACTGTTCTTAATGGAACAAATTATGTTATTGGAATCGT
TTCTTTTGGTTTTAAAGATTCGTGTCAATTGGGTTATCCTGCTGGATTCACAAGAGTTAC
GAGTTATCTTGGATGGATTGAAAGTCGAATTAACATGTCACCAAAATCTGTTGCTTGCAA
TGTATTACTTTTGATCATCATTCAAATTTTTTTGTTTTTTCGTAAATAA

>g16610.t2 Gene=g16610 Length=324
MKILIFATLISLANCWVNLPDEVKTAKSMDEHPTIQKILREKNPELFNENGEFINKTPFI
VGGSNATLGQFPHQALLFTYVDAKSIYLCGGSLIRYNWVLTAAHCVYIPYIKVAVYLGII
DSYNGPAQWGADVTSKSDVKIHSSYNDEFLINDIAMIYLRTATESLLSTPYVKTITLPMN
HTKTNLDGMNGTASGFGKTSDISDSSQFLKYVSLYITSNLVCRNLYGSDVVKDTNICVAT
TTTAATCSGDSGGPLTTVLNGTNYVIGIVSFGFKDSCQLGYPAGFTRVTSYLGWIESRIN
MSPKSVACNVLLLIIIQIFLFFRK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g16610.t2 CDD cd00190 Tryp_SPc 60 297 1.5756E-59
9 g16610.t2 Gene3D G3DSA:2.40.10.10 - 54 301 6.0E-56
2 g16610.t2 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 27 302 6.3E-60
3 g16610.t2 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 27 302 6.3E-60
4 g16610.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 90 105 7.9E-12
5 g16610.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 149 163 7.9E-12
6 g16610.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 244 256 7.9E-12
1 g16610.t2 Pfam PF00089 Trypsin 60 295 1.6E-41
12 g16610.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 15 -
13 g16610.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
14 g16610.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 10 -
16 g16610.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 11 15 -
11 g16610.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 16 303 -
15 g16610.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 304 322 -
10 g16610.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 323 324 -
20 g16610.t2 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 100 105 -
21 g16610.t2 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 245 256 -
22 g16610.t2 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 60 300 26.802
19 g16610.t2 SMART SM00020 trypsin_2 59 295 2.5E-56
7 g16610.t2 SUPERFAMILY SSF50494 Trypsin-like serine proteases 58 300 1.21E-64
8 g16610.t2 SignalP_EUK SignalP-noTM SignalP-noTM 1 15 -
18 g16610.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 305 322 -

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