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.t24 TTS g7898.t24 26810008 26810008
chr_2 g7898 g7898.t24 isoform g7898.t24 26810059 26812392
chr_2 g7898 g7898.t24 exon g7898.t24.exon1 26810059 26810075
chr_2 g7898 g7898.t24 exon g7898.t24.exon2 26810349 26810438
chr_2 g7898 g7898.t24 cds g7898.t24.CDS1 26810372 26810438
chr_2 g7898 g7898.t24 exon g7898.t24.exon3 26811168 26811243
chr_2 g7898 g7898.t24 cds g7898.t24.CDS2 26811168 26811243
chr_2 g7898 g7898.t24 exon g7898.t24.exon4 26811394 26811564
chr_2 g7898 g7898.t24 cds g7898.t24.CDS3 26811394 26811564
chr_2 g7898 g7898.t24 exon g7898.t24.exon5 26811625 26811687
chr_2 g7898 g7898.t24 cds g7898.t24.CDS4 26811625 26811687
chr_2 g7898 g7898.t24 exon g7898.t24.exon6 26811740 26811934
chr_2 g7898 g7898.t24 cds g7898.t24.CDS5 26811740 26811934
chr_2 g7898 g7898.t24 exon g7898.t24.exon7 26812042 26812145
chr_2 g7898 g7898.t24 cds g7898.t24.CDS6 26812042 26812145
chr_2 g7898 g7898.t24 exon g7898.t24.exon8 26812202 26812392
chr_2 g7898 g7898.t24 cds g7898.t24.CDS7 26812202 26812392
chr_2 g7898 g7898.t24 TSS g7898.t24 26812424 26812424

Sequences

>g7898.t24 Gene=g7898 Length=907
ATGAAAGTGTTTGTGTTATTTTTCTTGGCCTGTGCCACATCAGTTTATGCTGATCATTTT
ATTGAATTTGATTGGAGTAATGTAAAACCAGTGAGAGAAATTCCAGGTTTCTGGGAAAAA
AGACATGTATCATTAAGACCAAGAGCTAGCAATACACCAAGAAGACGAATTGTCAATGGC
GAAATTGCGACACCACATCAATTTCCTTATCAAGCTGGTCTTCTCTTCCAATTTACTGGT
GGCACTGCTTTATGTGGTGGTGCATTGATTTCAGCACGCACTGTTCTTACTGCTGCTCAT
TGCGTTGATGTCAGCTCTGGTGGTACAGTTGTTTTGGGTGCACAATTCATCAACCAAGTT
GAAGCAACACAACAAAGAATTCCAGTTACAACAGCCGGTATTGTTTTACATCCACAATGG
GACCCAAGTTTGATTCGCAATGATGTAGCAGTTCTTCATCTTTCAACACCTGCTACACTT
TCTAACATTGTTTCATTAATTGATTTGCCACCTCCTGAAAGTGTAACAACTTTTGAAAAT
TTCCCAGCAACAGTTTCCGGATGGGGTAGATTTGATGACAATTTACCTCAATCATCAGAT
GTTTTAAGATTTTATCGTGGAACAATATTATCACAAGCCAATTGCATTTTAAGATTTCCT
GGTGTTGTTCAACCAAGTAACATCTGTTTGTCTGGTCTTAATAATGGTAAGAATAATTCA
AAAATCCGGCGGGCCATTGACCACAACTTACAATGGACGTCATACTCATATTGGAATAGT
GTCATTTGGATTGGCTTTGGTTTGTGGCCATCTGTATTTGCTCGTACGTCATTCTACAAT
GACTGGATCACAGCAAACACCGTATAAAAAATGCGATAATATCTATTGCATAACGATAAC
ATTCATT

>g7898.t24 Gene=g7898 Length=288
MKVFVLFFLACATSVYADHFIEFDWSNVKPVREIPGFWEKRHVSLRPRASNTPRRRIVNG
EIATPHQFPYQAGLLFQFTGGTALCGGALISARTVLTAAHCVDVSSGGTVVLGAQFINQV
EATQQRIPVTTAGIVLHPQWDPSLIRNDVAVLHLSTPATLSNIVSLIDLPPPESVTTFEN
FPATVSGWGRFDDNLPQSSDVLRFYRGTILSQANCILRFPGVVQPSNICLSGLNNGKNNS
KIRRAIDHNLQWTSYSYWNSVIWIGFGLWPSVFARTSFYNDWITANTV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g7898.t24 CDD cd00190 Tryp_SPc 57 283 2.67794E-49
8 g7898.t24 Gene3D G3DSA:2.40.10.10 - 60 277 7.7E-41
9 g7898.t24 Gene3D G3DSA:2.40.10.10 - 69 283 7.7E-41
2 g7898.t24 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 4 285 1.9E-59
3 g7898.t24 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 4 285 1.9E-59
4 g7898.t24 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 86 101 2.1E-6
5 g7898.t24 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 144 158 2.1E-6
1 g7898.t24 Pfam PF00089 Trypsin 57 238 7.6E-34
11 g7898.t24 Phobius SIGNAL_PEPTIDE Signal peptide region 1 17 -
12 g7898.t24 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
13 g7898.t24 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 12 -
14 g7898.t24 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 13 17 -
10 g7898.t24 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 18 288 -
18 g7898.t24 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 96 101 -
19 g7898.t24 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 57 288 20.865
17 g7898.t24 SMART SM00020 trypsin_2 56 283 1.6E-38
6 g7898.t24 SUPERFAMILY SSF50494 Trypsin-like serine proteases 47 287 4.81E-52
7 g7898.t24 SignalP_EUK SignalP-noTM SignalP-noTM 1 17 -
16 g7898.t24 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