General information for g17236.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 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.t2 | isoform | g17236.t2 | 12905304 | 12907006 |
| chr_4 | g17236 | g17236.t2 | exon | g17236.t2.exon1 | 12905304 | 12905399 |
| chr_4 | g17236 | g17236.t2 | exon | g17236.t2.exon2 | 12905453 | 12905780 |
| chr_4 | g17236 | g17236.t2 | exon | g17236.t2.exon3 | 12905912 | 12906121 |
| chr_4 | g17236 | g17236.t2 | cds | g17236.t2.CDS1 | 12906089 | 12906121 |
| chr_4 | g17236 | g17236.t2 | exon | g17236.t2.exon4 | 12906403 | 12906640 |
| chr_4 | g17236 | g17236.t2 | cds | g17236.t2.CDS2 | 12906403 | 12906640 |
| chr_4 | g17236 | g17236.t2 | exon | g17236.t2.exon5 | 12906888 | 12907006 |
| chr_4 | g17236 | g17236.t2 | cds | g17236.t2.CDS3 | 12906888 | 12907006 |
| chr_4 | g17236 | g17236.t2 | TSS | g17236.t2 | NA | NA |
| chr_4 | g17236 | g17236.t2 | TTS | g17236.t2 | NA | NA |
Sequences
>g17236.t2 Gene=g17236 Length=991
ATGAAAAGTTTCTTGATATTCTTTGTTGTTTTCTCAAATTTAAATTTTAAAGTGAAGTCT
AATGAAGACTTTAATCAAAAATGGGAAGAATATAAAAATCATTACAATAAATCCTTCAAA
ATGGAATTTCGTGAAGAACGCTGTCGAAGAGCTTTTAAAGAAAATCTCGACACAATTTCA
CAACATAATGAAGCTTTTGACAATGGAAAAGCGTCATTTAAACTCGGAGTCAATCACCTT
GCTGACCTTTCAAACCTTCATTATCTCCGCAGTTATGTGCGATTAGTCGACAGTGATATT
GATGCAAATAACGATCGTGATTACATTCTCGGCAATTCACTTTTTCAAAATAAACAATAT
CCTGAGTCATTGGATTGGAGGGAAAAAGGTTTTGTGACTAAAGCAAAGAATCAGAAATCT
TGTGTTTCTTTTTTCAAGTATTGCGGGATCAATTGAAGGTCAAATTTTTAAACGAATCAA
CAAGTTGGTCGAATTAAGTCCTCAACAAATTGTTGACTGTAGCTCTTCTTTTGGAAACCA
TGGTTGTGCTGGTGGATCTTTAAGAACTACTTTGAAATATCTTGAAAAAAGTGGTGGATT
AATGAGAGAAAGTGATTACCCTTATACTTCTTCTCACAACAAATGTTCATTTGATGAAGA
CCTTGCAATTGTCAACATAACTTCTTGGTCAATTTTGCCATCAAAAGATGAAGAAGTCAT
GAAAGGTGTTCTCAATGAAGTTGGGCCAATTGCAATTTCAATTGATGCAAGTTTAAAGAC
TTTTCAATTGTATAGTGAAGGTGTTTATGATGATCCAAATTGTTCATCAACTGCTGTCAA
TCATGCTATGTTACTTGTTGGATACACACCTGATGCCTGGATTCTAAAAAACTGGTGGGG
AAAAAATTGGGGCATAAATGGATATATGCTTGTCAAAAGAGGAGTAAACAAATGTGGAAT
TGCAAATTATGCAGCTTATGCTGTCGTTTAA
>g17236.t2 Gene=g17236 Length=129
MRESDYPYTSSHNKCSFDEDLAIVNITSWSILPSKDEEVMKGVLNEVGPIAISIDASLKT
FQLYSEGVYDDPNCSSTAVNHAMLLVGYTPDAWILKNWWGKNWGINGYMLVKRGVNKCGI
ANYAAYAVV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g17236.t2 | CDD | cd02248 | Peptidase_C1A | 1 | 127 | 0e+00 |
| 6 | g17236.t2 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 1 | 129 | 0e+00 |
| 2 | g17236.t2 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 1 | 125 | 0e+00 |
| 3 | g17236.t2 | PANTHER | PTHR12411:SF774 | CATHEPSIN K | 1 | 125 | 0e+00 |
| 1 | g17236.t2 | Pfam | PF00112 | Papain family cysteine protease | 2 | 127 | 0e+00 |
| 5 | g17236.t2 | SMART | SM00645 | pept_c1 | 2 | 128 | 8e-07 |
| 4 | g17236.t2 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 2 | 128 | 0e+00 |
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.
