General information for g16524.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cathepsin L.
Parent gene
- The parent gene g16524 is located on chr_4: 9791309..9793549 (- 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 | g16524 | g16524.t1 | isoform | g16524.t1 | 9791309 | 9793549 |
| chr_4 | g16524 | g16524.t1 | exon | g16524.t1.exon1 | 9791309 | 9791385 |
| chr_4 | g16524 | g16524.t1 | cds | g16524.t1.CDS1 | 9791309 | 9791385 |
| chr_4 | g16524 | g16524.t1 | exon | g16524.t1.exon2 | 9791445 | 9791464 |
| chr_4 | g16524 | g16524.t1 | cds | g16524.t1.CDS2 | 9791445 | 9791464 |
| chr_4 | g16524 | g16524.t1 | exon | g16524.t1.exon3 | 9791531 | 9791591 |
| chr_4 | g16524 | g16524.t1 | cds | g16524.t1.CDS3 | 9791531 | 9791591 |
| chr_4 | g16524 | g16524.t1 | exon | g16524.t1.exon4 | 9792150 | 9792453 |
| chr_4 | g16524 | g16524.t1 | cds | g16524.t1.CDS4 | 9792150 | 9792453 |
| chr_4 | g16524 | g16524.t1 | exon | g16524.t1.exon5 | 9792856 | 9792986 |
| chr_4 | g16524 | g16524.t1 | cds | g16524.t1.CDS5 | 9792856 | 9792986 |
| chr_4 | g16524 | g16524.t1 | exon | g16524.t1.exon6 | 9793060 | 9793390 |
| chr_4 | g16524 | g16524.t1 | cds | g16524.t1.CDS6 | 9793060 | 9793390 |
| chr_4 | g16524 | g16524.t1 | exon | g16524.t1.exon7 | 9793448 | 9793549 |
| chr_4 | g16524 | g16524.t1 | cds | g16524.t1.CDS7 | 9793448 | 9793549 |
| chr_4 | g16524 | g16524.t1 | TSS | g16524.t1 | NA | NA |
| chr_4 | g16524 | g16524.t1 | TTS | g16524.t1 | NA | NA |
Sequences
>g16524.t1 Gene=g16524 Length=1026
ATGAATATTTTAATTTTTATTGGAATTTTAAGTTTCTTCTATTTTAAAAATGCAGAAGCT
ATTTCAGAAGATGTTGTAAAAGATCAATATTGGAAATGGAAGACCAAATATCGTGATTCA
GATCAAGAATCTGAAGTTCCTTATGTGATTTTTCGTCAAACTCTTATGAAAGTTGCTCAA
CATGAACTTCAATATTTTACAAAACGATCAAGTTATACCTATAAACTCAATGGTCGTTCA
GCTGACACTTTTAGTGAAATGGCATTATGGAATGGACTTTTGGTTGATAATTCTATAAAT
GAGGCTGCAGTCATTAGAAATAAAAGAAGTATAAATATGACAGGAGTTTATAATTTTCCA
CCAGCACCACCAAGTTGGGATTGGAGTGAGCAAGGATATGTGACTGATGTTGATGATCAA
GGATATTATTGTGGTTCTTGCTATTCTTTTGCTACTGCTTGTGCTATGGAAGGTCAATAT
ATGAAAGTTCATAAAAATTTAAGAAAATTTTCAAAACAACAAACTGTTGATTGTTCTCGT
AGTTTTGGAAATTTTGGATGTGAAGGTGGATATTTGAATGCAACTTTTAAGTACATTATA
CAAAATAATGGCATCACTAATGAAACTTTTTATCCTTATGTTGGAGTTGATGAAAATTGC
TATTATAATTCTTCAATGTATGCTGGATCAGTTTCAGGCTATGACTTCGTTTATGGTGAT
GAAGAAAATTTAAAAAGAGCTCTTTATGCAATTGGTCCTTTAGCCATTGGAATGAAAGGA
GATATTGAAAGCTTTTATTACTATGGTGGTGGAATTTTTGATGATGCTAATTGTTTTGGT
GCAATCAATCATGCTGTTTGTTTAGTTGGCTATGGAACTGATAATACGACTAACCCTCCT
ACTGATTATTGGATTGCAAAAAATTCATGGTCGACGGATTGGGGTGAAGGTGGATATTTC
AAGCTTTTGAGAGGTTCTAACTTGTGTAATGTTTCAAAATATGTCGTTTACCCAACAGTT
ATATGA
>g16524.t1 Gene=g16524 Length=341
MNILIFIGILSFFYFKNAEAISEDVVKDQYWKWKTKYRDSDQESEVPYVIFRQTLMKVAQ
HELQYFTKRSSYTYKLNGRSADTFSEMALWNGLLVDNSINEAAVIRNKRSINMTGVYNFP
PAPPSWDWSEQGYVTDVDDQGYYCGSCYSFATACAMEGQYMKVHKNLRKFSKQQTVDCSR
SFGNFGCEGGYLNATFKYIIQNNGITNETFYPYVGVDENCYYNSSMYAGSVSGYDFVYGD
EENLKRALYAIGPLAIGMKGDIESFYYYGGGIFDDANCFGAINHAVCLVGYGTDNTTNPP
TDYWIAKNSWSTDWGEGGYFKLLRGSNLCNVSKYVVYPTVI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g16524.t1 | CDD | cd02248 | Peptidase_C1A | 123 | 338 | 5.80244E-83 |
| 9 | g16524.t1 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 10 | 341 | 3.4E-80 |
| 2 | g16524.t1 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 20 | 335 | 1.4E-60 |
| 3 | g16524.t1 | PANTHER | PTHR12411:SF525 | CATHEPSIN S | 20 | 335 | 1.4E-60 |
| 6 | g16524.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 141 | 156 | 1.3E-5 |
| 5 | g16524.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 284 | 294 | 1.3E-5 |
| 4 | g16524.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 303 | 309 | 1.3E-5 |
| 1 | g16524.t1 | Pfam | PF00112 | Papain family cysteine protease | 123 | 339 | 3.3E-61 |
| 11 | g16524.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 12 | g16524.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 13 | g16524.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 15 | - |
| 14 | g16524.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 20 | - |
| 10 | g16524.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 341 | - |
| 17 | g16524.t1 | ProSitePatterns | PS00639 | Eukaryotic thiol (cysteine) proteases histidine active site. | 282 | 292 | - |
| 16 | g16524.t1 | ProSitePatterns | PS00640 | Eukaryotic thiol (cysteine) proteases asparagine active site. | 303 | 322 | - |
| 18 | g16524.t1 | SMART | SM00645 | pept_c1 | 122 | 339 | 2.3E-76 |
| 7 | g16524.t1 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 30 | 339 | 9.83E-82 |
| 8 | g16524.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
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. There were no conditions that were differentially expressed