Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Vitellin-degrading protease.

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_3 g513 g513.t5 TSS g513.t5 3853291 3853291
chr_3 g513 g513.t5 isoform g513.t5 3853654 3855533
chr_3 g513 g513.t5 exon g513.t5.exon1 3853654 3854097
chr_3 g513 g513.t5 cds g513.t5.CDS1 3853871 3854097
chr_3 g513 g513.t5 exon g513.t5.exon2 3854157 3854309
chr_3 g513 g513.t5 cds g513.t5.CDS2 3854157 3854309
chr_3 g513 g513.t5 exon g513.t5.exon3 3855334 3855410
chr_3 g513 g513.t5 cds g513.t5.CDS3 3855334 3855410
chr_3 g513 g513.t5 exon g513.t5.exon4 3855472 3855533
chr_3 g513 g513.t5 cds g513.t5.CDS4 3855472 3855533
chr_3 g513 g513.t5 TTS g513.t5 3855573 3855573

Sequences

>g513.t5 Gene=g513 Length=736
AGATATTTTTGTTCCTGACTTTCAATATGACGTAGACACCAATCGTGGACCACGAATAGT
TGGTGGACATGATGCAAATATTGAAGAGGTCCCATATCAAGTTTCACTTCGTCGCTATAA
TGAAGAAACTCAACTTTGGGGACACACATGCGGTGGAATCATTCTCACTACTGATGTTAC
TTTAAATGCTGCACATTGTGTTTATAATAGACTTCATATGAAATTCCAAATTCGTGCTGG
TTCTGATTTAAGATCACAAGGTGGTCAACTTGTAAATGTTACGAAATTGATCATGCATCC
TGACTATCAACCAAGTGGATTATATAATGATATTGCTATACTTAAGTTGCAACACAAATT
AATATTTGGCAGCAAAGTTTGGTCAATTGGTTTGCCACCAAGAGGTTATAGAGTTCCAGA
TGGTGCAGCTTTATTAGTTAGCGGCTGGGGAGCATTAGAATGGCAAGGTTCATCACCTGA
AAGATTGCAAAAAGTTTATGTTCCTGCTGTTTCAAATGAAAAATGTGCTGAAGTTTATGC
AAATATTCGTCCTCATAAAATTTGTGCTGGAATTGTTGGAAAAGATTCTTGTCAAGGTGA
CAGCGGTGGTCCTTTGGTTTACAAAAATTTCGTTGTTGGAGTTGTTTCATCAGGATATCG
TTGTGCATATGATGGATATCCCGGAATTTACACCAGAGTTTCAGAATTTTTAGATTTTAT
TGTTCGAAATTTATAA

>g513.t5 Gene=g513 Length=172
MKFQIRAGSDLRSQGGQLVNVTKLIMHPDYQPSGLYNDIAILKLQHKLIFGSKVWSIGLP
PRGYRVPDGAALLVSGWGALEWQGSSPERLQKVYVPAVSNEKCAEVYANIRPHKICAGIV
GKDSCQGDSGGPLVYKNFVVGVVSSGYRCAYDGYPGIYTRVSEFLDFIVRNL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g513.t5 CDD cd00190 Tryp_SPc 2 171 4.03519E-64
7 g513.t5 Gene3D G3DSA:2.40.10.10 - 2 172 2.6E-49
2 g513.t5 PANTHER PTHR24276 POLYSERASE-RELATED 3 170 5.4E-46
3 g513.t5 PANTHER PTHR24276:SF78 AT20289P-RELATED 3 170 5.4E-46
5 g513.t5 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 34 48 1.2E-7
4 g513.t5 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 122 134 1.2E-7
1 g513.t5 Pfam PF00089 Trypsin 3 168 2.0E-43
9 g513.t5 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 123 134 -
11 g513.t5 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 1 172 22.964
10 g513.t5 SMART SM00020 trypsin_2 4 168 3.9E-44
6 g513.t5 SUPERFAMILY SSF50494 Trypsin-like serine proteases 3 171 2.1E-54

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g513/g513.t5; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g513.t5.fa.iupred3.txt does not exist

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