Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Chymotrypsinogen A.

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 g17541 g17541.t5 TTS g17541.t5 13823566 13823566
chr_4 g17541 g17541.t5 isoform g17541.t5 13823627 13824673
chr_4 g17541 g17541.t5 exon g17541.t5.exon1 13823627 13823904
chr_4 g17541 g17541.t5 cds g17541.t5.CDS1 13823627 13823904
chr_4 g17541 g17541.t5 exon g17541.t5.exon2 13823973 13824454
chr_4 g17541 g17541.t5 cds g17541.t5.CDS2 13823973 13824454
chr_4 g17541 g17541.t5 exon g17541.t5.exon3 13824522 13824673
chr_4 g17541 g17541.t5 cds g17541.t5.CDS3 13824522 13824673
chr_4 g17541 g17541.t5 TSS g17541.t5 13824721 13824721

Sequences

>g17541.t5 Gene=g17541 Length=912
ATGAAGTTGCTTAAATCAATTTTTATTCTATTGCCTTTCATTGGAATTGTATTAGGTGAT
AAGAGTGGAAAGATCGTTGGAGGAAACACAGCAGTCAGAGGTCAATTTCCCTATCATGTT
TTCATTGATGTTTTTGATGGTCAAAGTACGCATATTTGTGGAGGAGCACTAATTCGTTTC
AATTATGTTCTCACTTCTGCTATATGTATTAGGAATTCTCTTGACATAAATCTAATTTTT
GGTAAAATCAATAGACATGAAGGATCTATTAGTGCTAGGTTTCATATCACAAAACGAGAA
CATATCATTATTCACCCGGAGTTTAATTCAACAACATATGCCAATGATTTAGCGTTGCTT
TATCTTGAAGGTTCTGAAACACTTTTACAAGATCCCTATGTTGATATTATTCCGCTGCCA
ACTGAAGAAGATTATCAAGAAGAAGTTGTTGGACTTAGAGGAAATGTGACAGGCTTTGGA
TTAATAAGTGATGATCCACCAAGGCTTGCGACGGAACTTAAATATATTCAATTACCAATC
ATTAGTAATGTGAATTGTCTGCAAACTTATGGAAACTCTATAAGTTGGGAAGATAAATTT
TGTCTTGATGGCACAGAAGGTTCAACATGCATTGGTGCACCGTTTGTTGTCTATCTAAAT
GGTCGAGATATTTTGGGAGGAATCGGAAGTATTGCACTCACCAACTGCACAATTGGACTT
CCTACAATTTTCATAAATTTGCTTCCACATCTTGATTGGATTGATGATAACACTTCTCAG
CCACCTGATACTGTTCCACCTCCTCAACCTGATGATAGATGCAATTGTGTTTGCAGATGC
TACACTTGTCCAGCTCCATCAGCTGAATCAACAAACAAGAACATCTTTAAAAAACGTTGG
TTAGAAAATTAA

>g17541.t5 Gene=g17541 Length=303
MKLLKSIFILLPFIGIVLGDKSGKIVGGNTAVRGQFPYHVFIDVFDGQSTHICGGALIRF
NYVLTSAICIRNSLDINLIFGKINRHEGSISARFHITKREHIIIHPEFNSTTYANDLALL
YLEGSETLLQDPYVDIIPLPTEEDYQEEVVGLRGNVTGFGLISDDPPRLATELKYIQLPI
ISNVNCLQTYGNSISWEDKFCLDGTEGSTCIGAPFVVYLNGRDILGGIGSIALTNCTIGL
PTIFINLLPHLDWIDDNTSQPPDTVPPPQPDDRCNCVCRCYTCPAPSAESTNKNIFKKRW
LEN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g17541.t5 CDD cd00190 Tryp_SPc 25 257 6.173E-39
5 g17541.t5 Gene3D G3DSA:2.40.10.10 - 19 260 1.5E-41
2 g17541.t5 PANTHER PTHR24260 - 22 260 6.3E-41
1 g17541.t5 Pfam PF00089 Trypsin 25 254 1.3E-28
7 g17541.t5 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
8 g17541.t5 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
9 g17541.t5 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 14 -
10 g17541.t5 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 19 -
6 g17541.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 303 -
13 g17541.t5 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 25 259 19.594
12 g17541.t5 SMART SM00020 trypsin_2 24 254 1.6E-23
3 g17541.t5 SUPERFAMILY SSF50494 Trypsin-like serine proteases 8 259 6.4E-50
4 g17541.t5 SignalP_EUK SignalP-noTM SignalP-noTM 1 19 -

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.

Raw TPM values