Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Chymotrypsin-1.

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_3 g920 g920.t11 TTS g920.t11 6863536 6863536
chr_3 g920 g920.t11 isoform g920.t11 6863614 6864674
chr_3 g920 g920.t11 exon g920.t11.exon1 6863614 6863667
chr_3 g920 g920.t11 cds g920.t11.CDS1 6863614 6863667
chr_3 g920 g920.t11 exon g920.t11.exon2 6863732 6864095
chr_3 g920 g920.t11 cds g920.t11.CDS2 6863732 6864095
chr_3 g920 g920.t11 exon g920.t11.exon3 6864152 6864293
chr_3 g920 g920.t11 cds g920.t11.CDS3 6864152 6864293
chr_3 g920 g920.t11 exon g920.t11.exon4 6864357 6864443
chr_3 g920 g920.t11 cds g920.t11.CDS4 6864357 6864443
chr_3 g920 g920.t11 exon g920.t11.exon5 6864504 6864547
chr_3 g920 g920.t11 cds g920.t11.CDS5 6864504 6864547
chr_3 g920 g920.t11 exon g920.t11.exon6 6864631 6864674
chr_3 g920 g920.t11 cds g920.t11.CDS6 6864631 6864674
chr_3 g920 g920.t11 TSS g920.t11 6864696 6864696

Sequences

>g920.t11 Gene=g920 Length=735
ATGATTCGTCAATTAGTAGTTTTTGCTTTGTTTGTTTCTGTGGCAGAAAGAAGAATTGTT
GGTGGAGTTGATAACGTCTTAGGGCAAGTACCATGGGCTGTTTCACTTAGAACATTAGCA
GGATTTCATTTCTGTACAGGATCAGTGGTCAGCAATTGGTATGTCATCACTGCAGCTCAT
TGCGTTGCTGGTCGAGCTGCATCAACAATTCATTTAGTCTTGGGAAGAGTTACACTTGAC
GGATTAACTGGAATGAATCGACAAGGTTTTAGAGTTGTTACTCATCCTGATTATAATGTT
AATACAATGCAATTCGATGTGAGTTTAGTTCAAGTCTCAGTAATAATCACGTTCAGCACA
ACAGTTCAATCAATTTTTGTTGGAAACTCATTCATTGGTGAAGGACTTCCTGCAAAAGTG
TCTGGTTGGGGTTCAACAAGTCAAGAGATCGGACCAACTTCAAATAATCTCAGAACACTC
GATACAACAACAATTTCAAATGAAAGTTGTAGAGCTCGTCATACAGAAGCTAACGCAGCT
CGCATTACATCAAGTAATTTGTGCACAAATAATGGATTTGGTGAAGGATTCTGTCAAACA
GGAGCTGGTGGATCTCTTGTATGGAATTCACAATTAATTGGTATTGCTTCATGGAATGTA
CCTTGTGCTCTTGGCTTCCCTGATGTTTATGTGAGAATCAGTGAAGTTCGAGATTGGATT
GTTTCTGTGATTTAA

>g920.t11 Gene=g920 Length=244
MIRQLVVFALFVSVAERRIVGGVDNVLGQVPWAVSLRTLAGFHFCTGSVVSNWYVITAAH
CVAGRAASTIHLVLGRVTLDGLTGMNRQGFRVVTHPDYNVNTMQFDVSLVQVSVIITFST
TVQSIFVGNSFIGEGLPAKVSGWGSTSQEIGPTSNNLRTLDTTTISNESCRARHTEANAA
RITSSNLCTNNGFGEGFCQTGAGGSLVWNSQLIGIASWNVPCALGFPDVYVRISEVRDWI
VSVI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g920.t11 CDD cd00190 Tryp_SPc 19 243 3.9342E-52
9 g920.t11 Gene3D G3DSA:2.40.10.10 - 12 243 1.2E-48
2 g920.t11 PANTHER PTHR24276 POLYSERASE-RELATED 16 240 2.0E-48
3 g920.t11 PANTHER PTHR24276:SF78 AT20289P-RELATED 16 240 2.0E-48
6 g920.t11 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 46 61 8.6E-5
5 g920.t11 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 102 116 8.6E-5
4 g920.t11 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 195 207 8.6E-5
1 g920.t11 Pfam PF00089 Trypsin 19 240 2.1E-41
11 g920.t11 Phobius SIGNAL_PEPTIDE Signal peptide region 1 17 -
12 g920.t11 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 4 -
13 g920.t11 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 5 12 -
14 g920.t11 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 13 17 -
10 g920.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 18 244 -
17 g920.t11 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 56 61 -
18 g920.t11 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 19 244 25.289
16 g920.t11 SMART SM00020 trypsin_2 18 240 2.5E-38
7 g920.t11 SUPERFAMILY SSF50494 Trypsin-like serine proteases 13 244 8.54E-57
8 g920.t11 SignalP_EUK SignalP-TM SignalP-TM 1 17 -

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