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.t4 TSS g513.t4 3853291 3853291
chr_3 g513 g513.t4 isoform g513.t4 3853318 3855533
chr_3 g513 g513.t4 exon g513.t4.exon1 3853318 3854097
chr_3 g513 g513.t4 cds g513.t4.CDS1 3853871 3854097
chr_3 g513 g513.t4 exon g513.t4.exon2 3854157 3854275
chr_3 g513 g513.t4 cds g513.t4.CDS2 3854157 3854275
chr_3 g513 g513.t4 exon g513.t4.exon3 3855472 3855533
chr_3 g513 g513.t4 cds g513.t4.CDS3 3855472 3855473
chr_3 g513 g513.t4 TTS g513.t4 3855573 3855573

Sequences

>g513.t4 Gene=g513 Length=961
ATGAAGTTGAAATTCTTTGTATTTTTAGCAATTTTTGCTGTAATTTCTGGTCAAGAAGGT
AAAATTTTAATAAAAGTTTCCAAACATAATCTAGTAAAAATTAAAAATTTTTAAGCATCG
TTATTTTTGAAATAGTTAGAGATTTATTCAAATTTTGGAAAATTAATATTTTTCAAATGT
AATAGGTGGTTTTTGAAAACGAAAAAAACAATTTAAAACTCTAAATTTTTATCAAAGTTT
CTTTTTTCTTCTTTTGAAAATTTGAGAAATTTGAGTCATTTTAAAATTTAAAATTCAAGT
TCTAAAAATTCATAATAAAATTTTCTTCCGTTAATCAGATATTTTTGTTCCTGACTTTCA
ATATGACGTAGACACCAATCGTGGACCACGAATAGTTGGTGGACATGATGCAAATATTGA
AGAGGTCCCATATCAAGTTTCACTTCGTCGCTATAATGAAGAAACTCAACTTTGGGGACA
CACATGCGGTGGAATCATTCTCACTACTGATGTTACTTTAAATGCTGCACATTGTGTTTA
TAATAGACTTCATATGAAATTCCAAATTCGTGCTGGTTCTGATTTAAGATCACAAGGTGG
TCAACTTGTAAATGTTACGAAATTGATCATGCATCCTGACTATCAACCAAGTGGATTATA
TAATGATATTGCTATACTTAAGTTGCAACACAAATTAATATTTGGCAGCAAAGTTTGGTC
AATTGGTTTGCCACCAAGAGGTTATAGAGTTCCAGATGGTGCAGCTTTATTAGTTAGCGG
CTGGGGAGCATTAGAATGGCAAGGTTCATCACCTGAAAGATTGCAAAAAGTTTATGTTCC
TGCTGTTTCAAATGAAAAATGTGCTGAAGTTTATGCAAATATTCGTCCTCATAAAATTTG
ATATCCCGGAATTTACACCAGAGTTTCAGAATTTTTAGATTTTATTGTTCGAAATTTATA
A

>g513.t4 Gene=g513 Length=115
MKFQIRAGSDLRSQGGQLVNVTKLIMHPDYQPSGLYNDIAILKLQHKLIFGSKVWSIGLP
PRGYRVPDGAALLVSGWGALEWQGSSPERLQKVYVPAVSNEKCAEVYANIRPHKI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g513.t4 Gene3D G3DSA:2.40.10.10 - 12 56 0.00000
6 g513.t4 Gene3D G3DSA:2.40.10.10 - 57 110 0.00000
2 g513.t4 PANTHER PTHR24276 POLYSERASE-RELATED 3 109 0.00000
3 g513.t4 PANTHER PTHR24276:SF78 AT20289P-RELATED 3 109 0.00000
1 g513.t4 Pfam PF00089 Trypsin 3 108 0.00000
8 g513.t4 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 1 115 10.69600
5 g513.t4 SMART SM00020 trypsin_2 4 115 0.00021
4 g513.t4 SUPERFAMILY SSF50494 Trypsin-like serine proteases 3 110 0.00000

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g513/g513.t4; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g513.t4.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