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_4 g15485 g15485.t2 TSS g15485.t2 5611121 5611121
chr_4 g15485 g15485.t2 isoform g15485.t2 5611152 5612009
chr_4 g15485 g15485.t2 exon g15485.t2.exon1 5611152 5611455
chr_4 g15485 g15485.t2 cds g15485.t2.CDS1 5611152 5611455
chr_4 g15485 g15485.t2 exon g15485.t2.exon2 5611587 5612009
chr_4 g15485 g15485.t2 cds g15485.t2.CDS2 5611587 5612008
chr_4 g15485 g15485.t2 TTS g15485.t2 5612514 5612514

Sequences

>g15485.t2 Gene=g15485 Length=727
ATGAAATTATTTATTTTTTTAATTTTTTCTATAAGTTCTGCACTTTGTCTTGTGCCAGTG
AAAGAAGGATGGAAATTAGTAAAATCACCTTTAGATAGTCCACATTTTCATGACGTTATG
GAAAAAATTTATTCAAATATTCCTGCAGCAAAACCAAATGTAAGAAGTGGAAGAATTGCT
GGTGGTGAACTTGCTTCTCTTGGTCAATTTCCTCATCTTGTGCTGCTTTACAATGTTGAT
AAATTTGGTGACACTTATATTTGTGGAAGCAGCATTATTAGTCATAATTGGTTACTTACT
GCCGGTCATTGCCTCCATGAAATTTCTTATACAACAGTTTATGCTGGAATTATTAATAGA
ATACTTGGGCCAGCAGTTTGGTCACGAGAAGTCACAGCTGCGTCGGGAAATTTCATTTTC
CATGAAGAATACAAAGGAGTACAAAATGACATCGCTTTAATTCGACTTGTTACTTCAATT
CCAAGTCATCCACATGTTGGAAATATTGCATTACCACGAAGAAGTGATGCAAGTGTTGTT
CTTGATGGAAAAATGGCAACAGTTGCAGGATTTGGAAGAATAAATGATGTTCAAATGCAA
CCATCAGAACATTTAAGATTTATGTCACAACCAATTTATCCAAATAGTAAATGTGAAACG
GTTTTTGGTAAAGTTAATGTTAGAGATACAAATTTATGCTTAAGTGGTGCAAATGGAAAA
TCAACAT

>g15485.t2 Gene=g15485 Length=242
MKLFIFLIFSISSALCLVPVKEGWKLVKSPLDSPHFHDVMEKIYSNIPAAKPNVRSGRIA
GGELASLGQFPHLVLLYNVDKFGDTYICGSSIISHNWLLTAGHCLHEISYTTVYAGIINR
ILGPAVWSREVTAASGNFIFHEEYKGVQNDIALIRLVTSIPSHPHVGNIALPRRSDASVV
LDGKMATVAGFGRINDVQMQPSEHLRFMSQPIYPNSKCETVFGKVNVRDTNLCLSGANGK
ST

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g15485.t2 Gene3D G3DSA:2.40.10.10 - 53 242 4.2E-33
2 g15485.t2 PANTHER PTHR24260 - 53 239 3.8E-33
3 g15485.t2 PANTHER PTHR24260:SF90 AT07769P-RELATED 53 239 3.8E-33
5 g15485.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 89 104 2.9E-6
4 g15485.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 146 160 2.9E-6
1 g15485.t2 Pfam PF00089 Trypsin 59 239 2.8E-26
10 g15485.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 16 -
11 g15485.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
12 g15485.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 11 -
13 g15485.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 12 16 -
9 g15485.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 17 242 -
14 g15485.t2 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 99 104 -
16 g15485.t2 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 59 242 15.764
15 g15485.t2 SMART SM00020 trypsin_2 58 241 3.1E-16
6 g15485.t2 SUPERFAMILY SSF50494 Trypsin-like serine proteases 51 240 1.62E-40
7 g15485.t2 SignalP_EUK SignalP-noTM SignalP-noTM 1 16 -

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