General information for g17236.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cathepsin 8.
Parent gene
- The parent gene g17236 is located on chr_4: 12905304..12907006 (+ 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 | g17236 | g17236.t1 | isoform | g17236.t1 | 12905304 | 12907006 |
| chr_4 | g17236 | g17236.t1 | exon | g17236.t1.exon1 | 12905304 | 12905399 |
| chr_4 | g17236 | g17236.t1 | cds | g17236.t1.CDS1 | 12905304 | 12905399 |
| chr_4 | g17236 | g17236.t1 | exon | g17236.t1.exon2 | 12905453 | 12905780 |
| chr_4 | g17236 | g17236.t1 | cds | g17236.t1.CDS2 | 12905453 | 12905780 |
| chr_4 | g17236 | g17236.t1 | exon | g17236.t1.exon3 | 12905843 | 12905861 |
| chr_4 | g17236 | g17236.t1 | cds | g17236.t1.CDS3 | 12905843 | 12905861 |
| chr_4 | g17236 | g17236.t1 | exon | g17236.t1.exon4 | 12905926 | 12906121 |
| chr_4 | g17236 | g17236.t1 | cds | g17236.t1.CDS4 | 12905926 | 12906121 |
| chr_4 | g17236 | g17236.t1 | exon | g17236.t1.exon5 | 12906403 | 12906640 |
| chr_4 | g17236 | g17236.t1 | cds | g17236.t1.CDS5 | 12906403 | 12906640 |
| chr_4 | g17236 | g17236.t1 | exon | g17236.t1.exon6 | 12906888 | 12907006 |
| chr_4 | g17236 | g17236.t1 | cds | g17236.t1.CDS6 | 12906888 | 12907006 |
| chr_4 | g17236 | g17236.t1 | TSS | g17236.t1 | NA | NA |
| chr_4 | g17236 | g17236.t1 | TTS | g17236.t1 | NA | NA |
Sequences
>g17236.t1 Gene=g17236 Length=996
ATGAAAAGTTTCTTGATATTCTTTGTTGTTTTCTCAAATTTAAATTTTAAAGTGAAGTCT
AATGAAGACTTTAATCAAAAATGGGAAGAATATAAAAATCATTACAATAAATCCTTCAAA
ATGGAATTTCGTGAAGAACGCTGTCGAAGAGCTTTTAAAGAAAATCTCGACACAATTTCA
CAACATAATGAAGCTTTTGACAATGGAAAAGCGTCATTTAAACTCGGAGTCAATCACCTT
GCTGACCTTTCAAACCTTCATTATCTCCGCAGTTATGTGCGATTAGTCGACAGTGATATT
GATGCAAATAACGATCGTGATTACATTCTCGGCAATTCACTTTTTCAAAATAAACAATAT
CCTGAGTCATTGGATTGGAGGGAAAAAGGTTTTGTGACTAAAGCAAAGAATCAGAAATCT
TGTGGTTCGTGTTATGCTTTTAGTATTGCGGGATCAATTGAAGGTCAAATTTTTAAACGA
ATCAACAAGTTGGTCGAATTAAGTCCTCAACAAATTGTTGACTGTAGCTCTTCTTTTGGA
AACCATGGTTGTGCTGGTGGATCTTTAAGAACTACTTTGAAATATCTTGAAAAAAGTGGT
GGATTAATGAGAGAAAGTGATTACCCTTATACTTCTTCTCACAACAAATGTTCATTTGAT
GAAGACCTTGCAATTGTCAACATAACTTCTTGGTCAATTTTGCCATCAAAAGATGAAGAA
GTCATGAAAGGTGTTCTCAATGAAGTTGGGCCAATTGCAATTTCAATTGATGCAAGTTTA
AAGACTTTTCAATTGTATAGTGAAGGTGTTTATGATGATCCAAATTGTTCATCAACTGCT
GTCAATCATGCTATGTTACTTGTTGGATACACACCTGATGCCTGGATTCTAAAAAACTGG
TGGGGAAAAAATTGGGGCATAAATGGATATATGCTTGTCAAAAGAGGAGTAAACAAATGT
GGAATTGCAAATTATGCAGCTTATGCTGTCGTTTAA
>g17236.t1 Gene=g17236 Length=331
MKSFLIFFVVFSNLNFKVKSNEDFNQKWEEYKNHYNKSFKMEFREERCRRAFKENLDTIS
QHNEAFDNGKASFKLGVNHLADLSNLHYLRSYVRLVDSDIDANNDRDYILGNSLFQNKQY
PESLDWREKGFVTKAKNQKSCGSCYAFSIAGSIEGQIFKRINKLVELSPQQIVDCSSSFG
NHGCAGGSLRTTLKYLEKSGGLMRESDYPYTSSHNKCSFDEDLAIVNITSWSILPSKDEE
VMKGVLNEVGPIAISIDASLKTFQLYSEGVYDDPNCSSTAVNHAMLLVGYTPDAWILKNW
WGKNWGINGYMLVKRGVNKCGIANYAAYAVV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g17236.t1 | CDD | cd02248 | Peptidase_C1A | 121 | 329 | 1.72125E-97 |
| 7 | g17236.t1 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 18 | 331 | 5.2E-95 |
| 3 | g17236.t1 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 35 | 327 | 4.3E-97 |
| 4 | g17236.t1 | PANTHER | PTHR12411:SF774 | CATHEPSIN K | 35 | 327 | 4.3E-97 |
| 1 | g17236.t1 | Pfam | PF08246 | Cathepsin propeptide inhibitor domain (I29) | 28 | 85 | 2.3E-9 |
| 2 | g17236.t1 | Pfam | PF00112 | Papain family cysteine protease | 121 | 329 | 8.0E-64 |
| 9 | g17236.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 10 | g17236.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 11 | g17236.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 12 | - |
| 12 | g17236.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 20 | - |
| 8 | g17236.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 331 | - |
| 15 | g17236.t1 | SMART | SM00848 | Inhibitor_I29_2 | 28 | 88 | 2.0E-13 |
| 14 | g17236.t1 | SMART | SM00645 | pept_c1 | 120 | 330 | 1.0E-82 |
| 5 | g17236.t1 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 21 | 330 | 1.58E-95 |
| 6 | g17236.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.
