Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Trypsin-4.

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_1 g9352 g9352.t6 TSS g9352.t6 2179734 2179734
chr_1 g9352 g9352.t6 isoform g9352.t6 2179758 2181103
chr_1 g9352 g9352.t6 exon g9352.t6.exon1 2179758 2180340
chr_1 g9352 g9352.t6 cds g9352.t6.CDS1 2180066 2180340
chr_1 g9352 g9352.t6 exon g9352.t6.exon2 2180708 2180865
chr_1 g9352 g9352.t6 cds g9352.t6.CDS2 2180708 2180865
chr_1 g9352 g9352.t6 exon g9352.t6.exon3 2180937 2181103
chr_1 g9352 g9352.t6 cds g9352.t6.CDS3 2180937 2181103
chr_1 g9352 g9352.t6 TTS g9352.t6 2181156 2181156

Sequences

>g9352.t6 Gene=g9352 Length=908
ATGAAAATATTCTTAATTTTTGTGAGCTTAATTGCTTCCATTATTGCGGCAAATGTCCGT
AGTGGTGGTAAAATAGTTGGTGGAATTGAAGTGCCAATTGAAAATGTGCCATATCAAGTT
TCTGTCCGGTATAACAACTACCATACTTGTGGAGGTTAACAAAAAAAAGTTCAAGTGTCA
ATATCAAATTTCTAATGCTCTTTTATAACTCAATTTTACTTTACAGGCTCGATTATATCT
TCATCCTTCATATTGACAGCACAACATTGTAAGTTAACACAAACATATTTGTTTGCACAA
TATTTTGAATGACGTGTTCTTTTCTACCCATTTCAGGCACTTCAGGAAGAACTGCTGGAT
ATTTAACAGTTCGTGCTGGTTCTAACAGTAGCATCAATGGTGGTGAAATTTTCCAAGTAT
CAAAAATCATTCCACATCCAAATTTCAATGAATATTCACTCGATTATGACTTTTCATTGC
TTAAATTGACCAATGCTATTGTACTTGATGGAATTACAAAAGACAAAGTTCAATTGCCAA
CACAAGATGAAATTTTAGCTAAAGGAATCGCAATGTTTGTGAGCGGCTGGGGAGCAACAC
TTAATCCAAACCAATCAACCAGTATTTTACGAGGTGTCACAATCACCAGCATCGACTTTG
ACACGTGCAATTTAATATACTTGAGAGATGGTGGCTTGGGTGCATCACAGATATGTGCGG
GTGAATTGGCCGGCGGAAAGGACTCGTGTTACGGGGACTCAGGCGGGCCAATGGTGTCAT
TGGCTGGTACGAGAAAACTTTATGGCGTTGTGTCATGGGGCATAGATTGTGCATTGCCTG
GCTGGCCAGGTGTCTATGCAAGAGTTTCACTCGTTCGTAATTGGATTGATGAAAATACCA
AAGTTTAA

>g9352.t6 Gene=g9352 Length=199
MTCSFLPISGTSGRTAGYLTVRAGSNSSINGGEIFQVSKIIPHPNFNEYSLDYDFSLLKL
TNAIVLDGITKDKVQLPTQDEILAKGIAMFVSGWGATLNPNQSTSILRGVTITSIDFDTC
NLIYLRDGGLGASQICAGELAGGKDSCYGDSGGPMVSLAGTRKLYGVVSWGIDCALPGWP
GVYARVSLVRNWIDENTKV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g9352.t6 CDD cd00190 Tryp_SPc 13 196 5.17384E-60
8 g9352.t6 Gene3D G3DSA:2.40.10.10 - 19 193 7.1E-44
7 g9352.t6 Gene3D G3DSA:2.40.10.10 - 74 187 7.1E-44
2 g9352.t6 PANTHER PTHR24276 POLYSERASE-RELATED 17 197 7.4E-53
3 g9352.t6 PANTHER PTHR24276:SF83 GH13245P2-RELATED 17 197 7.4E-53
5 g9352.t6 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 50 64 4.1E-6
4 g9352.t6 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 144 156 4.1E-6
1 g9352.t6 Pfam PF00089 Trypsin 20 193 2.4E-34
10 g9352.t6 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 145 156 -
12 g9352.t6 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 1 198 22.638
11 g9352.t6 SMART SM00020 trypsin_2 7 193 4.7E-37
6 g9352.t6 SUPERFAMILY SSF50494 Trypsin-like serine proteases 15 198 1.34E-49

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