Gene loci information

Transcript annotation

  • This transcript has been annotated as Lysosomal aspartic 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_4 g17114 g17114.t6 TTS g17114.t6 12518088 12518088
chr_4 g17114 g17114.t6 isoform g17114.t6 12518091 12519250
chr_4 g17114 g17114.t6 exon g17114.t6.exon1 12518091 12518297
chr_4 g17114 g17114.t6 cds g17114.t6.CDS1 12518210 12518297
chr_4 g17114 g17114.t6 exon g17114.t6.exon2 12518554 12518963
chr_4 g17114 g17114.t6 cds g17114.t6.CDS2 12518554 12518963
chr_4 g17114 g17114.t6 exon g17114.t6.exon3 12519032 12519250
chr_4 g17114 g17114.t6 cds g17114.t6.CDS3 12519032 12519043
chr_4 g17114 g17114.t6 TSS g17114.t6 NA NA

Sequences

>g17114.t6 Gene=g17114 Length=836
TTGGTGATTTAAAAATTCAAAAGCAAACATTTGCAGAAGCAGTTTCAGAACCCGGTTTAG
TTTTTGTTGCTGCTAAATTTGATGGAATTCTTGGATTAGGCTACAAATCAATTTCAGTTG
ATGGAGTTGAACCAGTTTTCTATAACATGTACAATCAAGGACTCATTTCAGAGCCAATTT
TCTCATTTTATTTGAATCGTGATCCAAATGGCAAAGAAGATTATTTTTGGTGGAAGTGAT
CCAGATCATTATGAAGGTGATTTCACTTATCTCCCAGTCAATCGCAAAGCATACTGGCAA
TTCAAAATGGATGGAGTGAAAATTGGTGACAAAACTTTCTGTAATGGTGGATGCCAAGCA
ATTGCTGACACTGGAACATCACTCATTGCTGGACCAACTGATGAAGTTACAGCAATTAAC
AAAGCCATCGGTGGAACACCAATTTTAAATGGACAATACATGGTTAATTGTGACATGATA
CCAAATTTGCCTACAATTAAATTCACTTTGGGTGGCAAGGAATTTGCACTTGATGGATCT
GATTATATTTTAAGAATCGCTCAAATGGGTAAAACTATTTGCTTGTCTGGTTTCATGGGA
ATTAATATTCCACCACCAAATGGACCACTATGGATTCTCGGTGATGTTTTTATTGGAAAA
TACTACACAGAATTTGATTTTGGCAATGACCGTGTTGGTTTTGCTGTCACAAAATAGACT
CGACAAAAATTCCATTTTATTTTAGAGGCTAAAAATCTCTCTCTATAAAAATATCAAAAT
ATTTTTTTAATTTTGTGCCAGATGATCAAAAAAAGAAATAAAAATTAATCTCAAAA

>g17114.t6 Gene=g17114 Length=169
MAKKIIFGGSDPDHYEGDFTYLPVNRKAYWQFKMDGVKIGDKTFCNGGCQAIADTGTSLI
AGPTDEVTAINKAIGGTPILNGQYMVNCDMIPNLPTIKFTLGGKEFALDGSDYILRIAQM
GKTICLSGFMGINIPPPNGPLWILGDVFIGKYYTEFDFGNDRVGFAVTK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g17114.t6 Gene3D G3DSA:2.60.40.1960 - 4 165 1.6E-61
9 g17114.t6 Gene3D G3DSA:2.40.70.10 Acid Proteases 29 150 1.6E-61
2 g17114.t6 PANTHER PTHR47966:SF17 ZGC:63831 4 169 9.1E-68
3 g17114.t6 PANTHER PTHR47966 BETA-SITE APP-CLEAVING ENZYME, ISOFORM A-RELATED 4 169 9.1E-68
4 g17114.t6 PRINTS PR00792 Pepsin (A1) aspartic protease family signature 3 16 7.8E-16
5 g17114.t6 PRINTS PR00792 Pepsin (A1) aspartic protease family signature 51 62 7.8E-16
6 g17114.t6 PRINTS PR00792 Pepsin (A1) aspartic protease family signature 142 157 7.8E-16
1 g17114.t6 Pfam PF00026 Eukaryotic aspartyl protease 4 166 1.7E-55
8 g17114.t6 ProSitePatterns PS00141 Eukaryotic and viral aspartyl proteases active site. 51 62 -
11 g17114.t6 ProSiteProfiles PS51767 Peptidase family A1 domain profile. 1 166 39.985
7 g17114.t6 SUPERFAMILY SSF50630 Acid proteases 4 166 9.75E-55

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:0006508 proteolysis BP
GO:0004190 aspartic-type endopeptidase activity MF

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