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.t25 TTS g7898.t25 26810008 26810008
chr_2 g7898 g7898.t25 isoform g7898.t25 26810059 26812392
chr_2 g7898 g7898.t25 exon g7898.t25.exon1 26810059 26810075
chr_2 g7898 g7898.t25 cds g7898.t25.CDS1 26810059 26810075
chr_2 g7898 g7898.t25 exon g7898.t25.exon2 26810349 26810438
chr_2 g7898 g7898.t25 cds g7898.t25.CDS2 26810349 26810438
chr_2 g7898 g7898.t25 exon g7898.t25.exon3 26811168 26811248
chr_2 g7898 g7898.t25 cds g7898.t25.CDS3 26811168 26811248
chr_2 g7898 g7898.t25 exon g7898.t25.exon4 26811412 26811564
chr_2 g7898 g7898.t25 cds g7898.t25.CDS4 26811412 26811564
chr_2 g7898 g7898.t25 exon g7898.t25.exon5 26811625 26811687
chr_2 g7898 g7898.t25 cds g7898.t25.CDS5 26811625 26811687
chr_2 g7898 g7898.t25 exon g7898.t25.exon6 26811740 26811934
chr_2 g7898 g7898.t25 cds g7898.t25.CDS6 26811740 26811934
chr_2 g7898 g7898.t25 exon g7898.t25.exon7 26812042 26812145
chr_2 g7898 g7898.t25 cds g7898.t25.CDS7 26812042 26812145
chr_2 g7898 g7898.t25 exon g7898.t25.exon8 26812202 26812392
chr_2 g7898 g7898.t25 cds g7898.t25.CDS8 26812202 26812392
chr_2 g7898 g7898.t25 TSS g7898.t25 26812424 26812424

Sequences

>g7898.t25 Gene=g7898 Length=894
ATGAAAGTGTTTGTGTTATTTTTCTTGGCCTGTGCCACATCAGTTTATGCTGATCATTTT
ATTGAATTTGATTGGAGTAATGTAAAACCAGTGAGAGAAATTCCAGGTTTCTGGGAAAAA
AGACATGTATCATTAAGACCAAGAGCTAGCAATACACCAAGAAGACGAATTGTCAATGGC
GAAATTGCGACACCACATCAATTTCCTTATCAAGCTGGTCTTCTCTTCCAATTTACTGGT
GGCACTGCTTTATGTGGTGGTGCATTGATTTCAGCACGCACTGTTCTTACTGCTGCTCAT
TGCGTTGATGTCAGCTCTGGTGGTACAGTTGTTTTGGGTGCACAATTCATCAACCAAGTT
GAAGCAACACAACAAAGAATTCCAGTTACAACAGCCGGTATTGTTTTACATCCACAATGG
GACCCAAGTTTGATTCGCAATGATGTAGCAGTTCTTCATCTTTCAACACCTGCTACACTT
TCTAACATTGTTTCATTAATTGATTTGCCACCTCCTGAAAGTGTAACAACTTTTGAAAAT
TTCCCAGCAACAGTTTCCGGATGGGGTAGATTTGATGACAATTTACCTCAATCATCAGAT
GTTTTAAGATTTTATCGTGGAACAATATTATCACAAGCCAATTGCATTTTAAGATTTCCT
GGTGTTGTTCAACCAAGTAACATCTGTTTGTCTGGTCTTAATAATGGTGACTCCGGCGGG
CCATTGACCACAACTTACAATGGACGTCATACTCATATTGGAATAGTGTCATTTGGATTG
GCTTTGGTTTGTGGCCATCTGTATTTGCTCGTACGTCATTCTACAATGACTGGATCACAG
CAAACACCGTATAAAAAATGCGATAATATCTATTGCATAACGATAACATTCATT

>g7898.t25 Gene=g7898 Length=298
MKVFVLFFLACATSVYADHFIEFDWSNVKPVREIPGFWEKRHVSLRPRASNTPRRRIVNG
EIATPHQFPYQAGLLFQFTGGTALCGGALISARTVLTAAHCVDVSSGGTVVLGAQFINQV
EATQQRIPVTTAGIVLHPQWDPSLIRNDVAVLHLSTPATLSNIVSLIDLPPPESVTTFEN
FPATVSGWGRFDDNLPQSSDVLRFYRGTILSQANCILRFPGVVQPSNICLSGLNNGDSGG
PLTTTYNGRHTHIGIVSFGLALVCGHLYLLVRHSTMTGSQQTPYKKCDNIYCITITFI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g7898.t25 CDD cd00190 Tryp_SPc 57 265 1.2479E-57
11 g7898.t25 Gene3D G3DSA:2.40.10.10 - 57 102 7.8E-16
9 g7898.t25 Gene3D G3DSA:2.40.10.10 - 108 191 2.1E-16
10 g7898.t25 Gene3D G3DSA:2.40.10.10 - 198 293 2.5E-9
2 g7898.t25 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 4 264 2.3E-66
3 g7898.t25 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 4 264 2.3E-66
4 g7898.t25 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 86 101 1.2E-10
5 g7898.t25 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 144 158 1.2E-10
6 g7898.t25 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 231 243 1.2E-10
1 g7898.t25 Pfam PF00089 Trypsin 57 265 1.4E-41
14 g7898.t25 Phobius SIGNAL_PEPTIDE Signal peptide region 1 17 -
15 g7898.t25 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
16 g7898.t25 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 12 -
18 g7898.t25 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 13 17 -
13 g7898.t25 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 18 251 -
17 g7898.t25 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 252 271 -
12 g7898.t25 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 272 298 -
22 g7898.t25 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 96 101 -
23 g7898.t25 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 57 298 22.47
21 g7898.t25 SMART SM00020 trypsin_2 56 271 1.6E-46
7 g7898.t25 SUPERFAMILY SSF50494 Trypsin-like serine proteases 47 266 6.99E-60
8 g7898.t25 SignalP_EUK SignalP-noTM SignalP-noTM 1 17 -
20 g7898.t25 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