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_2 g7898 g7898.t30 TTS g7898.t30 26810008 26810008
chr_2 g7898 g7898.t30 isoform g7898.t30 26810372 26812392
chr_2 g7898 g7898.t30 exon g7898.t30.exon1 26810372 26810438
chr_2 g7898 g7898.t30 exon g7898.t30.exon2 26811168 26811248
chr_2 g7898 g7898.t30 exon g7898.t30.exon3 26811394 26811564
chr_2 g7898 g7898.t30 cds g7898.t30.CDS1 26811549 26811564
chr_2 g7898 g7898.t30 exon g7898.t30.exon4 26811621 26811687
chr_2 g7898 g7898.t30 cds g7898.t30.CDS2 26811621 26811687
chr_2 g7898 g7898.t30 exon g7898.t30.exon5 26811740 26811934
chr_2 g7898 g7898.t30 cds g7898.t30.CDS3 26811740 26811934
chr_2 g7898 g7898.t30 exon g7898.t30.exon6 26812042 26812145
chr_2 g7898 g7898.t30 cds g7898.t30.CDS4 26812042 26812145
chr_2 g7898 g7898.t30 exon g7898.t30.exon7 26812202 26812392
chr_2 g7898 g7898.t30 cds g7898.t30.CDS5 26812202 26812392
chr_2 g7898 g7898.t30 TSS g7898.t30 26812424 26812424

Sequences

>g7898.t30 Gene=g7898 Length=876
ATGAAAGTGTTTGTGTTATTTTTCTTGGCCTGTGCCACATCAGTTTATGCTGATCATTTT
ATTGAATTTGATTGGAGTAATGTAAAACCAGTGAGAGAAATTCCAGGTTTCTGGGAAAAA
AGACATGTATCATTAAGACCAAGAGCTAGCAATACACCAAGAAGACGAATTGTCAATGGC
GAAATTGCGACACCACATCAATTTCCTTATCAAGCTGGTCTTCTCTTCCAATTTACTGGT
GGCACTGCTTTATGTGGTGGTGCATTGATTTCAGCACGCACTGTTCTTACTGCTGCTCAT
TGCGTTGATGTCAGCTCTGGTGGTACAGTTGTTTTGGGTGCACAATTCATCAACCAAGTT
GAAGCAACACAACAAAGAATTCCAGTTACAACAGCCGGTATTGTTTTACATCCACAATGG
GACCCAAGTTTGATTCGCAATGATGTAGCAGTTCTTCATCTTTCAACACCTGCTACACTT
TCTAACATTGTTTCATTAATTGATTTGCCACCTCCTGAAAGTGTAACAACTTTTGAAAAT
TTCCCAGCAACAGGTTTTTTCCGGATGGGGTAGATTTGATGACAATTTACCTCAATCATC
AGATGTTTTAAGATTTTATCGTGGAACAATATTATCACAAGCCAATTGCATTTTAAGATT
TCCTGGTGTTGTTCAACCAAGTAACATCTGTTTGTCTGGTCTTAATAATGGTAAGAATAA
TTCAAAAAGTGACTCCGGCGGGCCATTGACCACAACTTACAATGGACGTCATACTCATAT
TGGAATAGTGTCATTTGGATTGGCTTTGGTTTGTGGCCATCTGTATTTGCTCGTACGTCA
TTCTACAATGACTGGATCACAGCAAACACCGTATAA

>g7898.t30 Gene=g7898 Length=190
MKVFVLFFLACATSVYADHFIEFDWSNVKPVREIPGFWEKRHVSLRPRASNTPRRRIVNG
EIATPHQFPYQAGLLFQFTGGTALCGGALISARTVLTAAHCVDVSSGGTVVLGAQFINQV
EATQQRIPVTTAGIVLHPQWDPSLIRNDVAVLHLSTPATLSNIVSLIDLPPPESVTTFEN
FPATGFFRMG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g7898.t30 CDD cd00190 Tryp_SPc 57 174 9.4162E-39
9 g7898.t30 Gene3D G3DSA:2.40.10.10 - 57 102 3.7E-16
8 g7898.t30 Gene3D G3DSA:2.40.10.10 - 108 186 7.1E-13
2 g7898.t30 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 4 178 4.7E-41
3 g7898.t30 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 4 178 4.7E-41
4 g7898.t30 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 86 101 1.1E-6
5 g7898.t30 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 144 158 1.1E-6
1 g7898.t30 Pfam PF00089 Trypsin 57 174 8.4E-27
11 g7898.t30 Phobius SIGNAL_PEPTIDE Signal peptide region 1 17 -
12 g7898.t30 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
13 g7898.t30 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 12 -
14 g7898.t30 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 13 17 -
10 g7898.t30 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 18 190 -
18 g7898.t30 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 96 101 -
19 g7898.t30 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 57 190 13.874
17 g7898.t30 SMART SM00020 trypsin_2 56 190 3.6E-6
6 g7898.t30 SUPERFAMILY SSF50494 Trypsin-like serine proteases 46 185 4.37E-37
7 g7898.t30 SignalP_EUK SignalP-noTM SignalP-noTM 1 17 -
16 g7898.t30 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 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