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.t37 TTS g17114.t37 12518088 12518088
chr_4 g17114 g17114.t37 isoform g17114.t37 12518210 12520450
chr_4 g17114 g17114.t37 exon g17114.t37.exon1 12518210 12518297
chr_4 g17114 g17114.t37 cds g17114.t37.CDS1 12518210 12518297
chr_4 g17114 g17114.t37 exon g17114.t37.exon2 12518572 12518963
chr_4 g17114 g17114.t37 cds g17114.t37.CDS2 12518572 12518963
chr_4 g17114 g17114.t37 exon g17114.t37.exon3 12519024 12519251
chr_4 g17114 g17114.t37 cds g17114.t37.CDS3 12519024 12519251
chr_4 g17114 g17114.t37 exon g17114.t37.exon4 12519796 12519986
chr_4 g17114 g17114.t37 cds g17114.t37.CDS4 12519796 12519986
chr_4 g17114 g17114.t37 exon g17114.t37.exon5 12520047 12520222
chr_4 g17114 g17114.t37 cds g17114.t37.CDS5 12520047 12520222
chr_4 g17114 g17114.t37 exon g17114.t37.exon6 12520289 12520450
chr_4 g17114 g17114.t37 cds g17114.t37.CDS6 12520289 12520362
chr_4 g17114 g17114.t37 TSS g17114.t37 12520450 12520450

Sequences

>g17114.t37 Gene=g17114 Length=1237
AGTTTATTTTGATTTTGCCGATCGTGATAGAACAAAGAAGAGAGAAATAAAATTTGAGCA
TTTTGTTACTGAAGTTCGAAGGCAAAAGATGTCAAAAAAGTTTAGTGCAACAATTTTTCT
TCTCCTTCAGCTTTTGCTGATTGTAAATGGAAAACTATTGAGAATTCCTTTGTATAAATT
TGAATCAGCAAGACGCCATTTTCAAACCGTAGGAACAGATCTCACACAAGTTCGTCTTGC
AAATGTTCAAGGACCAACACCAGAACCATTGTCAAATTATCTTGATGCCCAATATTATGG
ACCAATTACAATTGGAAGTCCACCACAAAGTTTCAAAGTTGTTTTTGACACTGGAAGTTC
AAATTTATGGGTTCCATCAAAATCTTGTTCACTTATGAACATTGCCTGTCTTATGCATAA
CAAATATGATTCGAAAAAAAGTTCAACATACGAGAAAAATGGAACAAAATTTCATATCGA
ATACGGTAGCGGTTCACTAAGTGGCTTCTTGTCAACTGATACTGTCGGTATTGGTGATTT
AAAAATTCAAAAGCAAACATTTGCAGAAGCAGTTTCAGAACCCGGTTTAGTTTTTGTTGC
TGCTAAATTTGATGGAATTCTTGGATTAGGCTACAAATCAATTTCAGTTGATGGAGTTGA
ACCAGTTTTCTATAACATGTACAATCAAGGACTCATTTCAGAGCCAATTTTCTCATTTTA
TTTGAATCGTGATCCAAATGGCAAAGAAGGTGGAGAAATTATTTTTGGTGGAAGTGATCC
AGATCATTATGAAGGTGATTTCACTTATCTCCCAGTCAATCGCAAAGCATACTGGCAATT
CAAAATGGATGGAGTGAAAATTGGTGACAAAACTTTCTGTAATGGTGGATGCCAAGCAAT
TGCTGACACTGGAACATCACTCATTGCTGGACCAACTGATGAAGTTACAGCAATTAACAA
AGCCATCGGTGGAACACCAATTTTAAATGGACAATACATGGTTAATTGTGACATGATACC
AAATTTGCCTACAATTAAATTCACTTTGGGTGGCAAGGAATTTGCACTTGATGGATCTGA
TTATATTTTAAGAATCGCTCAAATGGGTAAAACTATTTGCTTGTCTGGTTTCATGGGAAT
TAATATTCCATGGATTCTCGGTGATGTTTTTATTGGAAAATACTACACAGAATTTGATTT
TGGCAATGACCGTGTTGGTTTTGCTGTCACAAAATAG

>g17114.t37 Gene=g17114 Length=382
MSKKFSATIFLLLQLLLIVNGKLLRIPLYKFESARRHFQTVGTDLTQVRLANVQGPTPEP
LSNYLDAQYYGPITIGSPPQSFKVVFDTGSSNLWVPSKSCSLMNIACLMHNKYDSKKSST
YEKNGTKFHIEYGSGSLSGFLSTDTVGIGDLKIQKQTFAEAVSEPGLVFVAAKFDGILGL
GYKSISVDGVEPVFYNMYNQGLISEPIFSFYLNRDPNGKEGGEIIFGGSDPDHYEGDFTY
LPVNRKAYWQFKMDGVKIGDKTFCNGGCQAIADTGTSLIAGPTDEVTAINKAIGGTPILN
GQYMVNCDMIPNLPTIKFTLGGKEFALDGSDYILRIAQMGKTICLSGFMGINIPWILGDV
FIGKYYTEFDFGNDRVGFAVTK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g17114.t37 Gene3D G3DSA:2.40.70.10 Acid Proteases 51 149 2.2E-41
11 g17114.t37 Gene3D G3DSA:2.40.70.10 Acid Proteases 150 381 8.7E-83
3 g17114.t37 PANTHER PTHR47966:SF42 CATHEPSIN D 15 380 2.7E-147
4 g17114.t37 PANTHER PTHR47966 BETA-SITE APP-CLEAVING ENZYME, ISOFORM A-RELATED 15 380 2.7E-147
7 g17114.t37 PRINTS PR00792 Pepsin (A1) aspartic protease family signature 75 95 8.2E-29
6 g17114.t37 PRINTS PR00792 Pepsin (A1) aspartic protease family signature 222 235 8.2E-29
5 g17114.t37 PRINTS PR00792 Pepsin (A1) aspartic protease family signature 270 281 8.2E-29
8 g17114.t37 PRINTS PR00792 Pepsin (A1) aspartic protease family signature 355 370 8.2E-29
1 g17114.t37 Pfam PF07966 A1 Propeptide 23 49 2.2E-4
2 g17114.t37 Pfam PF00026 Eukaryotic aspartyl protease 68 379 1.7E-125
14 g17114.t37 Phobius SIGNAL_PEPTIDE Signal peptide region 1 21 -
15 g17114.t37 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 5 -
16 g17114.t37 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 6 17 -
17 g17114.t37 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 18 21 -
13 g17114.t37 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 22 382 -
19 g17114.t37 ProSitePatterns PS00141 Eukaryotic and viral aspartyl proteases active site. 84 95 -
20 g17114.t37 ProSitePatterns PS00141 Eukaryotic and viral aspartyl proteases active site. 270 281 -
21 g17114.t37 ProSiteProfiles PS51767 Peptidase family A1 domain profile. 69 379 81.741
9 g17114.t37 SUPERFAMILY SSF50630 Acid proteases 9 381 1.86E-127
10 g17114.t37 SignalP_EUK SignalP-TM SignalP-TM 1 21 -
18 g17114.t37 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 7 29 -

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