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 g17172 g17172.t9 TSS g17172.t9 12708180 12708180
chr_4 g17172 g17172.t9 isoform g17172.t9 12708208 12709231
chr_4 g17172 g17172.t9 exon g17172.t9.exon1 12708208 12708391
chr_4 g17172 g17172.t9 cds g17172.t9.CDS1 12708350 12708391
chr_4 g17172 g17172.t9 exon g17172.t9.exon2 12708464 12708515
chr_4 g17172 g17172.t9 cds g17172.t9.CDS2 12708464 12708515
chr_4 g17172 g17172.t9 exon g17172.t9.exon3 12708584 12709024
chr_4 g17172 g17172.t9 cds g17172.t9.CDS3 12708584 12709024
chr_4 g17172 g17172.t9 exon g17172.t9.exon4 12709080 12709231
chr_4 g17172 g17172.t9 cds g17172.t9.CDS4 12709080 12709231
chr_4 g17172 g17172.t9 TTS g17172.t9 12709311 12709311

Sequences

>g17172.t9 Gene=g17172 Length=829
ATGAAGTTCTTAATTCTTTTGGTCACAGTTGTTGGATTTGTAGCAGCAGAGCAAGTTGAT
TGGTCAAATGTTCGTCCAATTCATGAAGTCTTGCAAGACACATTAACTAGAAGTGCTGTT
ACAGCTGAAAGACGTATTGTCAATGGACAACCAGCTCAACCACATCAATTTCCATATCAA
GTTTCACATTGACAGGAACTTCACTCTGTGGTGGATCAGTTATCAGCACAAATGCCCTCA
TTGCACTGCTCCATTTGCTCAAAGTTATTTGATTATTGCTGGTGCATATAATAGAGTACA
AATCGAACCAAACCAACAACGCAGAACAGAACCAGCAAGCAACTTTATTCAACATCCTGA
ATATGGCAGTATTCGTTTGATCAATGATATTGCTGTCATTCGTGTCACTCAAGCTTTTAC
TTTTAATGAATTTGTACAGCCAGTTCAAATTGCCTCAAATCCAAATGAACTTCATGTTGG
TGCAAGAGTTGATGTATCAGGATTTGGAAGATTCAGTGATAGCTTGCCAAATACATCAGA
AGTTGTTCTATACACTACTAAGACTGTCATTACCAATGCTCAATGTTTGTCATTCTTCCC
TGCCAATGTTATTGCAACAACAATTTGTGCTGTTGGTGATCCAGAAATTAATAACTCAGT
TTGTAATGGTGATTCAGGTGGTCCATTAACAATTCAACGCAATGAAGGTTCATACCAAGT
TGGTGTTGTTTCATTTGGAAGTGCTCAAGGATGTGAAGCTGGCTTCCCAGATGGTTATGC
CCGTGTTTCCCATTTCAATGAATGGATTCGTACTACAGCTGGTTTCTAA

>g17172.t9 Gene=g17172 Length=228
MDNQLNHINFHIKFHIDRNFTLWWISYQHKCPHCTAPFAQSYLIIAGAYNRVQIEPNQQR
RTEPASNFIQHPEYGSIRLINDIAVIRVTQAFTFNEFVQPVQIASNPNELHVGARVDVSG
FGRFSDSLPNTSEVVLYTTKTVITNAQCLSFFPANVIATTICAVGDPEINNSVCNGDSGG
PLTIQRNEGSYQVGVVSFGSAQGCEAGFPDGYARVSHFNEWIRTTAGF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g17172.t9 CDD cd00190 Tryp_SPc 33 225 4.2262E-48
6 g17172.t9 Gene3D G3DSA:2.40.10.10 - 33 222 1.2E-39
5 g17172.t9 Gene3D G3DSA:2.40.10.10 - 101 216 1.2E-39
2 g17172.t9 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 33 224 1.0E-56
3 g17172.t9 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 33 224 1.0E-56
1 g17172.t9 Pfam PF00089 Trypsin 33 222 2.0E-35
8 g17172.t9 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 172 183 -
10 g17172.t9 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 33 227 18.749
9 g17172.t9 SMART SM00020 trypsin_2 20 222 2.9E-27
4 g17172.t9 SUPERFAMILY SSF50494 Trypsin-like serine proteases 33 226 2.02E-45

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