General information for g16363.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cathepsin L1.
Parent gene
- The parent gene g16363 is located on chr_4: 9202433..9204965 (+ strand)
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 | g16363 | g16363.t1 | TSS | g16363.t1 | 9202397 | 9202397 |
| chr_4 | g16363 | g16363.t1 | isoform | g16363.t1 | 9202433 | 9204596 |
| chr_4 | g16363 | g16363.t1 | exon | g16363.t1.exon1 | 9202433 | 9202896 |
| chr_4 | g16363 | g16363.t1 | cds | g16363.t1.CDS1 | 9202433 | 9202896 |
| chr_4 | g16363 | g16363.t1 | exon | g16363.t1.exon2 | 9203061 | 9203165 |
| chr_4 | g16363 | g16363.t1 | cds | g16363.t1.CDS2 | 9203061 | 9203165 |
| chr_4 | g16363 | g16363.t1 | exon | g16363.t1.exon3 | 9203236 | 9203606 |
| chr_4 | g16363 | g16363.t1 | cds | g16363.t1.CDS3 | 9203236 | 9203606 |
| chr_4 | g16363 | g16363.t1 | exon | g16363.t1.exon4 | 9203676 | 9203727 |
| chr_4 | g16363 | g16363.t1 | cds | g16363.t1.CDS4 | 9203676 | 9203727 |
| chr_4 | g16363 | g16363.t1 | exon | g16363.t1.exon5 | 9204272 | 9204596 |
| chr_4 | g16363 | g16363.t1 | cds | g16363.t1.CDS5 | 9204272 | 9204596 |
| chr_4 | g16363 | g16363.t1 | TTS | g16363.t1 | 9204953 | 9204953 |
Sequences
>g16363.t1 Gene=g16363 Length=1317
ATGAAAACTTTCGTGACTGTTTTATTTTGTGCCATTCTTTTGGTTTCTTCATCTTTTGCA
TTAAAAATTTCAATCAAAATTTCTGAAACTAAAAAAATTTCATCACTAAATAAAAATGCG
GAACTTTTCAACAATTTTTTGAAAGATTTCAATATTGAACTTTCGCCAGACGATAATTTC
GAAGAAAGACTTGCAGTTTTTATGGAAAATTATAGAAAAATTCAAGAACACAATAAAAAA
TATGAGAAAGGACTTGTTTCATTCAGCATGGGTTTAAATCAATTTACACATTTGAGAGAA
GATGAAATGGCAAATCTTAACAAATTTTATGATGATGAAGGAAATTTTGAGTTCAAAAAT
GTGACGACATTTCGATTTGATGATGAAAATTTCAGTTTACCGAAAAGCTTTGATTGGAAA
ACAAAGGGAGTTTTGCAACCAGTTCAAGATCAAAAAAATTGCGGTTCCTGCTATGTTTTT
GCTGGCATTGCTGCAATTGAAGCTCAAATGATGATTCAGTATAAAAATTATCAGAAATTA
TCAGAACAAGAAGCAATGGAATGCTTAGAAGGCTGTTCTGGAGGGTATCTCTATGAAGTT
TTGCAATATTCACATGATCACATGGGATGTGCATCAGGAAAATCTTATCCATATAAAGGT
CGTGTGTTTAATTCTTGTTCATTTGAAAGACCTCGCGTAAAAAATAGCAAAGTCAAAACA
TTTTTACGGTTTCAAGGCGAAAAATCAATCATGCAAAAATTAGTAGATGATGGTCCAGTC
ATAGCTTTGTTTAGTTTTTATCCAAGTATTCGTCACTACCATCAAGGGATATATGAAAAA
CTTCCGAATGAAGAGCAAGATGGATACCACGCGATTTTAATCGTTGGTTATGATGAAGAT
AGTTTTGGTAGGAAGTATTGGATTATCAGAAACTCATGGGGTCCACGATGGGGTGAAAGT
GGATATTTTAAGATGAAGAGAGGAGTTAACATGTTTTTGCACTCCTTACTTTTGTGTGGT
GGTTCACGTTATGATGTCATGAAATATTCAATAACTCACAAAGGATGTGCATCAGGAAAA
TCTTATCCATTTAAAGAACGTGTGGTTAATTCTTGTTCATTTAAAAGACCTCGTGTAAAA
AATAGCAAAGTCAAGAAAGTTTTCGCATTAAAAACTGAAAAATTAATGATGCAAGCTTTG
GTAAAATATGGACCAATTTCAGCAGGACTTATTGTTTATCCCAGTTTGAATTATTATAAA
AAAGGAATTTATGAAAAAAACCAAATGAGACAAAAAATGGATACCACGCGATTTTAA
>g16363.t1 Gene=g16363 Length=438
MKTFVTVLFCAILLVSSSFALKISIKISETKKISSLNKNAELFNNFLKDFNIELSPDDNF
EERLAVFMENYRKIQEHNKKYEKGLVSFSMGLNQFTHLREDEMANLNKFYDDEGNFEFKN
VTTFRFDDENFSLPKSFDWKTKGVLQPVQDQKNCGSCYVFAGIAAIEAQMMIQYKNYQKL
SEQEAMECLEGCSGGYLYEVLQYSHDHMGCASGKSYPYKGRVFNSCSFERPRVKNSKVKT
FLRFQGEKSIMQKLVDDGPVIALFSFYPSIRHYHQGIYEKLPNEEQDGYHAILIVGYDED
SFGRKYWIIRNSWGPRWGESGYFKMKRGVNMFLHSLLLCGGSRYDVMKYSITHKGCASGK
SYPFKERVVNSCSFKRPRVKNSKVKKVFALKTEKLMMQALVKYGPISAGLIVYPSLNYYK
KGIYEKNQMRQKMDTTRF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 22 | g16363.t1 | CDD | cd02248 | Peptidase_C1A | 134 | 340 | 1.82528E-67 |
| 16 | g16363.t1 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 18 | 334 | 1.4E-80 |
| 15 | g16363.t1 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 335 | 436 | 3.2E-13 |
| 5 | g16363.t1 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 52 | 329 | 2.4E-65 |
| 7 | g16363.t1 | PANTHER | PTHR12411:SF57 | CATHEPSIN L1 | 52 | 329 | 2.4E-65 |
| 4 | g16363.t1 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 340 | 427 | 2.4E-65 |
| 6 | g16363.t1 | PANTHER | PTHR12411:SF57 | CATHEPSIN L1 | 340 | 427 | 2.4E-65 |
| 9 | g16363.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 151 | 166 | 3.0E-6 |
| 8 | g16363.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 290 | 300 | 3.0E-6 |
| 10 | g16363.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 306 | 312 | 3.0E-6 |
| 1 | g16363.t1 | Pfam | PF08246 | Cathepsin propeptide inhibitor domain (I29) | 43 | 102 | 3.5E-10 |
| 3 | g16363.t1 | Pfam | PF00112 | Papain family cysteine protease | 133 | 330 | 3.2E-55 |
| 2 | g16363.t1 | Pfam | PF00112 | Papain family cysteine protease | 340 | 431 | 2.0E-10 |
| 18 | g16363.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 19 | g16363.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 20 | g16363.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 15 | - |
| 21 | g16363.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 20 | - |
| 17 | g16363.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 438 | - |
| 26 | g16363.t1 | ProSitePatterns | PS00139 | Eukaryotic thiol (cysteine) proteases cysteine active site. | 151 | 162 | - |
| 25 | g16363.t1 | ProSitePatterns | PS00639 | Eukaryotic thiol (cysteine) proteases histidine active site. | 288 | 298 | - |
| 24 | g16363.t1 | ProSitePatterns | PS00640 | Eukaryotic thiol (cysteine) proteases asparagine active site. | 306 | 325 | - |
| 28 | g16363.t1 | SMART | SM00848 | Inhibitor_I29_2 | 43 | 103 | 1.6E-16 |
| 27 | g16363.t1 | SMART | SM00645 | pept_c1 | 133 | 342 | 6.7E-52 |
| 11 | g16363.t1 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 40 | 332 | 8.47E-76 |
| 12 | g16363.t1 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 339 | 426 | 7.37E-13 |
| 14 | g16363.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
| 13 | g16363.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 20 | - |
| 23 | g16363.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 397 | 419 | - |
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:0008234 | cysteine-type peptidase 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.
