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 g16608 g16608.t2 TSS g16608.t2 10213400 10213400
chr_4 g16608 g16608.t2 isoform g16608.t2 10213446 10215366
chr_4 g16608 g16608.t2 exon g16608.t2.exon1 10213446 10213700
chr_4 g16608 g16608.t2 cds g16608.t2.CDS1 10213446 10213700
chr_4 g16608 g16608.t2 exon g16608.t2.exon2 10213758 10213796
chr_4 g16608 g16608.t2 cds g16608.t2.CDS2 10213758 10213796
chr_4 g16608 g16608.t2 exon g16608.t2.exon3 10214454 10214901
chr_4 g16608 g16608.t2 cds g16608.t2.CDS3 10214454 10214901
chr_4 g16608 g16608.t2 exon g16608.t2.exon4 10214953 10215045
chr_4 g16608 g16608.t2 cds g16608.t2.CDS4 10214953 10215045
chr_4 g16608 g16608.t2 exon g16608.t2.exon5 10215299 10215366
chr_4 g16608 g16608.t2 cds g16608.t2.CDS5 10215299 10215366
chr_4 g16608 g16608.t2 TTS g16608.t2 10215505 10215505

Sequences

>g16608.t2 Gene=g16608 Length=903
ATGAAGATTTTAATATTTGTTACTCTAATTTCACTAGCAAGTTGTTGGGTTAATTTGCCA
GATGAGGCAAAAACTGCAAAGTCTATGGATGAACATCCAACGATTCAAAAGATTTTAAGA
GAAAAAAATCCAGAGTTGTTTAATGAAAATGGCGAAATTATTAAAAAAACTCCATTCATA
ATTGGAGGATCGAATGCAACTTTCGGGCAATTTCCACACCAAGCATTGCTTTTTACGTAT
GTTAGCGAGACTTCTGTCTATCTTTGTGGTGGTTCATTGATTCGTTATAATTGGGCAGCT
CATTGTGTCTATATTCCTTTCATGAAAGTAGCAGTATATCTTGGAATCATTGATTCTTAC
TATGGTCCAGCATATTGGGGCGCAGATGTGACTTCAACAGATGTAAAAATCCATTCAGGT
TACAATGACAATTACCTTACCAATGATATTGCTATGATTTATTTGAGAACTGCAACTGAA
TCAATTCTTAATGCTTACATTGGAACCATTCCATTGCCTAAAAGTCATGTCAATACGAAT
TTAGATGGAAGGAGTTCAATTGTGAGTGGTTTTGGCAAGACAAGTGATAACAGTACTTCA
TCGCAATTTTTAAAATATGTTCAACTCTATATAACTTCCAATTCAGTTTGTGAACAAGTC
TATGGACCAAATTATGTCAGAGATACAAACATTTGTGTTGCAACAACAAATACTGCGGCC
ACTTGTTCAGGAGATTCTGGAGGACCATTGACCACTGTTCTTGATGGAACAAATTATGTT
GTTGGAATCGTTTCGTTTGGTGCTGCTATTTCATGTGAAATGGGCTATCCTGCTGGATTC
ACAAGAGTCACAAGCTTCATTGGATGGATAGAAGATCGATTCACTTTACCACCAGCATTC
TAA

>g16608.t2 Gene=g16608 Length=300
MKILIFVTLISLASCWVNLPDEAKTAKSMDEHPTIQKILREKNPELFNENGEIIKKTPFI
IGGSNATFGQFPHQALLFTYVSETSVYLCGGSLIRYNWAAHCVYIPFMKVAVYLGIIDSY
YGPAYWGADVTSTDVKIHSGYNDNYLTNDIAMIYLRTATESILNAYIGTIPLPKSHVNTN
LDGRSSIVSGFGKTSDNSTSSQFLKYVQLYITSNSVCEQVYGPNYVRDTNICVATTNTAA
TCSGDSGGPLTTVLDGTNYVVGIVSFGAAISCEMGYPAGFTRVTSFIGWIEDRFTLPPAF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g16608.t2 CDD cd00190 Tryp_SPc 60 292 1.4427E-61
10 g16608.t2 Gene3D G3DSA:2.40.10.10 - 53 295 3.3E-51
2 g16608.t2 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 25 294 4.2E-53
3 g16608.t2 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 25 294 4.2E-53
5 g16608.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 90 105 7.8E-6
6 g16608.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 145 159 7.8E-6
4 g16608.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 239 251 7.8E-6
1 g16608.t2 Pfam PF00089 Trypsin 60 290 3.8E-39
12 g16608.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 15 -
13 g16608.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
14 g16608.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 10 -
15 g16608.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 11 15 -
11 g16608.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 16 300 -
18 g16608.t2 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 240 251 -
19 g16608.t2 ProSiteProfiles PS51257 Prokaryotic membrane lipoprotein lipid attachment site profile. 1 15 5.0
20 g16608.t2 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 60 295 23.624
17 g16608.t2 SMART SM00020 trypsin_2 59 290 5.1E-52
7 g16608.t2 SUPERFAMILY SSF50494 Trypsin-like serine proteases 54 292 3.99E-60
9 g16608.t2 SignalP_EUK SignalP-noTM SignalP-noTM 1 15 -
8 g16608.t2 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 23 -

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