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.t20 TTS g17114.t20 12518088 12518088
chr_4 g17114 g17114.t20 isoform g17114.t20 12518210 12520362
chr_4 g17114 g17114.t20 exon g17114.t20.exon1 12518210 12518297
chr_4 g17114 g17114.t20 cds g17114.t20.CDS1 12518210 12518297
chr_4 g17114 g17114.t20 exon g17114.t20.exon2 12518554 12518963
chr_4 g17114 g17114.t20 cds g17114.t20.CDS2 12518554 12518963
chr_4 g17114 g17114.t20 exon g17114.t20.exon3 12519024 12519251
chr_4 g17114 g17114.t20 cds g17114.t20.CDS3 12519024 12519251
chr_4 g17114 g17114.t20 exon g17114.t20.exon4 12519796 12519986
chr_4 g17114 g17114.t20 cds g17114.t20.CDS4 12519796 12519986
chr_4 g17114 g17114.t20 exon g17114.t20.exon5 12520047 12520213
chr_4 g17114 g17114.t20 cds g17114.t20.CDS5 12520047 12520213
chr_4 g17114 g17114.t20 exon g17114.t20.exon6 12520289 12520362
chr_4 g17114 g17114.t20 cds g17114.t20.CDS6 12520289 12520362
chr_4 g17114 g17114.t20 TSS g17114.t20 12520391 12520391

Sequences

>g17114.t20 Gene=g17114 Length=1158
ATGTCAAAAAAGTTTAGTGCAACAATTTTTCTTCTCCTTCAGCTTTTGCTGATTGTAAAT
GGAAAACTATTGAGGTATAAATTTGAATCAGCAAGACGCCATTTTCAAACCGTAGGAACA
GATCTCACACAAGTTCGTCTTGCAAATGTTCAAGGACCAACACCAGAACCATTGTCAAAT
TATCTTGATGCCCAATATTATGGACCAATTACAATTGGAAGTCCACCACAAAGTTTCAAA
GTTGTTTTTGACACTGGAAGTTCAAATTTATGGGTTCCATCAAAATCTTGTTCACTTATG
AACATTGCCTGTCTTATGCATAACAAATATGATTCGAAAAAAAGTTCAACATACGAGAAA
AATGGAACAAAATTTCATATCGAATACGGTAGCGGTTCACTAAGTGGCTTCTTGTCAACT
GATACTGTCGGTATTGGTGATTTAAAAATTCAAAAGCAAACATTTGCAGAAGCAGTTTCA
GAACCCGGTTTAGTTTTTGTTGCTGCTAAATTTGATGGAATTCTTGGATTAGGCTACAAA
TCAATTTCAGTTGATGGAGTTGAACCAGTTTTCTATAACATGTACAATCAAGGACTCATT
TCAGAGCCAATTTTCTCATTTTATTTGAATCGTGATCCAAATGGCAAAGAAGGTGGAGAA
ATTATTTTTGGTGGAAGTGATCCAGATCATTATGAAGGTGATTTCACTTATCTCCCAGTC
AATCGCAAAGCATACTGGCAATTCAAAATGGATGGAGTGAAAATTGGTGACAAAACTTTC
TGTAATGGTGGATGCCAAGCAATTGCTGACACTGGAACATCACTCATTGCTGGACCAACT
GATGAAGTTACAGCAATTAACAAAGCCATCGGTGGAACACCAATTTTAAATGGACAATAC
ATGGTTAATTGTGACATGATACCAAATTTGCCTACAATTAAATTCACTTTGGGTGGCAAG
GAATTTGCACTTGATGGATCTGATTATATTTTAAGAATCGCTCAAATGGGTAAAACTATT
TGCTTGTCTGGTTTCATGGGAATTAATATTCCACCACCAAATGGACCACTATGGATTCTC
GGTGATGTTTTTATTGGAAAATACTACACAGAATTTGATTTTGGCAATGACCGTGTTGGT
TTTGCTGTCACAAAATAG

>g17114.t20 Gene=g17114 Length=385
MSKKFSATIFLLLQLLLIVNGKLLRYKFESARRHFQTVGTDLTQVRLANVQGPTPEPLSN
YLDAQYYGPITIGSPPQSFKVVFDTGSSNLWVPSKSCSLMNIACLMHNKYDSKKSSTYEK
NGTKFHIEYGSGSLSGFLSTDTVGIGDLKIQKQTFAEAVSEPGLVFVAAKFDGILGLGYK
SISVDGVEPVFYNMYNQGLISEPIFSFYLNRDPNGKEGGEIIFGGSDPDHYEGDFTYLPV
NRKAYWQFKMDGVKIGDKTFCNGGCQAIADTGTSLIAGPTDEVTAINKAIGGTPILNGQY
MVNCDMIPNLPTIKFTLGGKEFALDGSDYILRIAQMGKTICLSGFMGINIPPPNGPLWIL
GDVFIGKYYTEFDFGNDRVGFAVTK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g17114.t20 Gene3D G3DSA:2.40.70.10 Acid Proteases 48 146 2.3E-41
11 g17114.t20 Gene3D G3DSA:2.40.70.10 Acid Proteases 147 384 2.5E-86
2 g17114.t20 PANTHER PTHR47966:SF42 CATHEPSIN D 47 383 5.2E-153
3 g17114.t20 PANTHER PTHR47966 BETA-SITE APP-CLEAVING ENZYME, ISOFORM A-RELATED 47 383 5.2E-153
6 g17114.t20 PRINTS PR00792 Pepsin (A1) aspartic protease family signature 72 92 8.4E-29
7 g17114.t20 PRINTS PR00792 Pepsin (A1) aspartic protease family signature 219 232 8.4E-29
5 g17114.t20 PRINTS PR00792 Pepsin (A1) aspartic protease family signature 267 278 8.4E-29
4 g17114.t20 PRINTS PR00792 Pepsin (A1) aspartic protease family signature 358 373 8.4E-29
1 g17114.t20 Pfam PF00026 Eukaryotic aspartyl protease 65 382 1.8E-128
13 g17114.t20 Phobius SIGNAL_PEPTIDE Signal peptide region 1 21 -
14 g17114.t20 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 5 -
15 g17114.t20 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 6 17 -
16 g17114.t20 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 18 21 -
12 g17114.t20 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 22 385 -
17 g17114.t20 ProSitePatterns PS00141 Eukaryotic and viral aspartyl proteases active site. 81 92 -
18 g17114.t20 ProSitePatterns PS00141 Eukaryotic and viral aspartyl proteases active site. 267 278 -
19 g17114.t20 ProSiteProfiles PS51767 Peptidase family A1 domain profile. 66 382 82.796
8 g17114.t20 SUPERFAMILY SSF50630 Acid proteases 9 384 3.25E-127
9 g17114.t20 SignalP_EUK SignalP-noTM SignalP-noTM 1 21 -

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

Pathway

  • This transcript belongs to the following pathways

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