Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Chymotrypsin-2.

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 g15013 g15013.t26 TSS g15013.t26 3513859 3513859
chr_4 g15013 g15013.t26 isoform g15013.t26 3513904 3515116
chr_4 g15013 g15013.t26 exon g15013.t26.exon1 3513904 3514228
chr_4 g15013 g15013.t26 cds g15013.t26.CDS1 3513904 3514228
chr_4 g15013 g15013.t26 exon g15013.t26.exon2 3514328 3514541
chr_4 g15013 g15013.t26 cds g15013.t26.CDS2 3514328 3514541
chr_4 g15013 g15013.t26 exon g15013.t26.exon3 3514600 3514687
chr_4 g15013 g15013.t26 cds g15013.t26.CDS3 3514600 3514687
chr_4 g15013 g15013.t26 exon g15013.t26.exon4 3515087 3515116
chr_4 g15013 g15013.t26 cds g15013.t26.CDS4 3515087 3515116
chr_4 g15013 g15013.t26 TTS g15013.t26 3515192 3515192

Sequences

>g15013.t26 Gene=g15013 Length=657
ATGTTTAAATTTATCGTTCTTTTGGGCCTTGTGTCATCAGCACTCTGTGCCAGTCTTTCA
TCACCTGCCATTGATCCAGAATGGGAAGGTTTCATTGTAGGAGGAAGCACAGCTTCAGCT
GGTCAATTCCCACATCAAGTTTCACTTAGATCATCAGGAAATGCTCATTTCTGTGGTGGT
TTCATTATTAACAATCGCTGGGTTGGATCAGCTGCTCACTGCACAGTTGGACGTACTGCC
GCAAACACAATCTCAGTTGTTGGTACCAACAGTCGTACATCAGGTGGTGTTGCTCACAGT
ACATCACGCATTGTCAACCATCCAACTCATGTTGGCGGTGGTGTTTCAGCAACTGCATCA
GGTTGGGGTCAAACATCACATCCAGGCTCAGCTGCTGCCAATTTGCAATTCTTAACTAAA
CCAACTTTGACAAATGCTGACTGCCGTGCTCGTCACTCTGCTGGAAATGCTGCCCGTGTC
TTTGACAACACTATCTGTACATTCTTGAGAGCAGGAGCTGGTATGTGCATGGGTGACAGT
GGTGGCCCATTGATTGCTGGTGGTACAGTTATTGGTGCAGTTTCATGGGGTATTGCATGC
GCTCAAGGATTCCCTGATGTTTTCGCTCATCGCACATGGATGATCAACCAAATGTAA

>g15013.t26 Gene=g15013 Length=218
MFKFIVLLGLVSSALCASLSSPAIDPEWEGFIVGGSTASAGQFPHQVSLRSSGNAHFCGG
FIINNRWVGSAAHCTVGRTAANTISVVGTNSRTSGGVAHSTSRIVNHPTHVGGGVSATAS
GWGQTSHPGSAAANLQFLTKPTLTNADCRARHSAGNAARVFDNTICTFLRAGAGMCMGDS
GGPLIAGGTVIGAVSWGIACAQGFPDVFAHRTWMINQM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g15013.t26 CDD cd00190 Tryp_SPc 32 217 1.03397E-49
13 g15013.t26 Gene3D G3DSA:2.40.10.10 - 32 93 2.8E-16
12 g15013.t26 Gene3D G3DSA:2.40.10.10 - 94 210 2.4E-24
4 g15013.t26 PANTHER PTHR24276 POLYSERASE-RELATED 30 110 2.7E-37
6 g15013.t26 PANTHER PTHR24276:SF89 IP07603P 30 110 2.7E-37
3 g15013.t26 PANTHER PTHR24276 POLYSERASE-RELATED 114 210 2.7E-37
5 g15013.t26 PANTHER PTHR24276:SF89 IP07603P 114 210 2.7E-37
8 g15013.t26 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 59 74 5.4E-8
7 g15013.t26 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 173 185 5.4E-8
2 g15013.t26 Pfam PF00089 Trypsin 32 109 5.4E-14
1 g15013.t26 Pfam PF00089 Trypsin 114 210 3.3E-18
15 g15013.t26 Phobius SIGNAL_PEPTIDE Signal peptide region 1 16 -
16 g15013.t26 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
17 g15013.t26 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 11 -
18 g15013.t26 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 12 16 -
14 g15013.t26 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 17 218 -
22 g15013.t26 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 174 185 -
23 g15013.t26 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 32 218 20.405
21 g15013.t26 SMART SM00020 trypsin_2 31 214 1.7E-25
9 g15013.t26 SUPERFAMILY SSF50494 Trypsin-like serine proteases 5 218 1.21E-45
11 g15013.t26 SignalP_EUK SignalP-noTM SignalP-noTM 1 16 -
20 g15013.t26 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 23 -
10 g15013.t26 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