General information for g15893.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cathepsin L-like.
Parent gene
- The parent gene g15893 is located on chr_4: 7197596..7204062 (+ 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 | g15893 | g15893.t1 | isoform | g15893.t1 | 7197142 | 7199277 |
| chr_4 | g15893 | g15893.t1 | exon | g15893.t1.exon1 | 7197142 | 7197210 |
| chr_4 | g15893 | g15893.t1 | cds | g15893.t1.CDS1 | 7197142 | 7197210 |
| chr_4 | g15893 | g15893.t1 | exon | g15893.t1.exon2 | 7197276 | 7197596 |
| chr_4 | g15893 | g15893.t1 | cds | g15893.t1.CDS2 | 7197276 | 7197596 |
| chr_4 | g15893 | g15893.t1 | exon | g15893.t1.exon3 | 7198431 | 7198559 |
| chr_4 | g15893 | g15893.t1 | cds | g15893.t1.CDS3 | 7198431 | 7198559 |
| chr_4 | g15893 | g15893.t1 | exon | g15893.t1.exon4 | 7198634 | 7198925 |
| chr_4 | g15893 | g15893.t1 | cds | g15893.t1.CDS4 | 7198634 | 7198925 |
| chr_4 | g15893 | g15893.t1 | exon | g15893.t1.exon5 | 7198983 | 7199028 |
| chr_4 | g15893 | g15893.t1 | cds | g15893.t1.CDS5 | 7198983 | 7199028 |
| chr_4 | g15893 | g15893.t1 | exon | g15893.t1.exon6 | 7199090 | 7199127 |
| chr_4 | g15893 | g15893.t1 | cds | g15893.t1.CDS6 | 7199090 | 7199127 |
| chr_4 | g15893 | g15893.t1 | exon | g15893.t1.exon7 | 7199189 | 7199277 |
| chr_4 | g15893 | g15893.t1 | cds | g15893.t1.CDS7 | 7199189 | 7199277 |
| chr_4 | g15893 | g15893.t1 | TSS | g15893.t1 | NA | NA |
| chr_4 | g15893 | g15893.t1 | TTS | g15893.t1 | NA | NA |
Sequences
>g15893.t1 Gene=g15893 Length=984
ATGAAAATTTTAATTCTTTTATTATTTTCTTGTGTTTTTGCTACTGTTCCAAATTTTGAT
GAATTTCGTAAAATGTACCATAAATCTTACAAAAATAAAACAGAATTGAATTTAGCAAAG
AAAAATTATGAGGCTCATGTTGCATATATTGAAAGATTTAACAGTAAAAAAAGATTACCT
TACAAACTCGGTATTAATAAATATTCAGATTTAAGTCCTACTAAAAAGAAAAGATTAAAT
GGATATCGATCTTCGATATTTTCATCGCTGATTGAAAGAAGTGAAGAACTTGTAGCTGAA
AGAGGAATATTGCCAAATTTTGTTGACTGGAGAAATTCAAATGCTGTTTCACCTGTGCAA
GATCAAGGTTTCTATTGTGGATCTTGTTGGGCTTATTCAGCAGCTGGTGCGCTTGAAGGA
TCAATATCACTCTCACGAAGAACGCCAGCAATACAATTGTCCATCCAACAGTTTATAGAC
TGCAATTACGATGCGAAAATCGGAAATTTTGGCTGTGATGGAGGTTTTATGAATGTTGCT
CTATTTTATTCCAGCAAATTTGATATAACTACTGGTGTTCGTTATCCGTATATGGAAGCA
AGAAATAATTGCAGTTATACCAAACCGCAAACAAAATTTGTTTTATCATCGCCAGTTCAA
ATTCCAAAAGGTGATGAAGATGCTTTAAAAGTTGCTGTTGCAACTATAGGACCGGTTGCT
ACAGCCATGGATGGTGATCATGCTTCTTTTTATAGCTATTCAAGTGGTGTTTATTATGAA
CCTAATTGTACTCAATGGGTTAATCATGGTGTTTTAATTGTTGGATATGGAACAGATCCA
GTTGGTGGCGATTATTGGCTTGCAAAAAATTCATGGAGTGCGAATTGGGGTGAAGATGGA
TTTTTTAAAATAGCTAGAAACAGAGGAAACCATTGTGGGATTGCTAATAATGCTGTTTAT
ATTAAAATAAACAAAATTGTATAA
>g15893.t1 Gene=g15893 Length=327
MKILILLLFSCVFATVPNFDEFRKMYHKSYKNKTELNLAKKNYEAHVAYIERFNSKKRLP
YKLGINKYSDLSPTKKKRLNGYRSSIFSSLIERSEELVAERGILPNFVDWRNSNAVSPVQ
DQGFYCGSCWAYSAAGALEGSISLSRRTPAIQLSIQQFIDCNYDAKIGNFGCDGGFMNVA
LFYSSKFDITTGVRYPYMEARNNCSYTKPQTKFVLSSPVQIPKGDEDALKVAVATIGPVA
TAMDGDHASFYSYSSGVYYEPNCTQWVNHGVLIVGYGTDPVGGDYWLAKNSWSANWGEDG
FFKIARNRGNHCGIANNAVYIKINKIV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g15893.t1 | CDD | cd02248 | Peptidase_C1A | 105 | 321 | 5.62158E-88 |
| 10 | g15893.t1 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 14 | 322 | 1.6E-88 |
| 3 | g15893.t1 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 19 | 321 | 9.6E-71 |
| 4 | g15893.t1 | PANTHER | PTHR12411:SF734 | CATHEPSIN S, ORTHOLOG 1 | 19 | 321 | 9.6E-71 |
| 7 | g15893.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 123 | 138 | 3.4E-8 |
| 5 | g15893.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 269 | 279 | 3.4E-8 |
| 6 | g15893.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 285 | 291 | 3.4E-8 |
| 1 | g15893.t1 | Pfam | PF08246 | Cathepsin propeptide inhibitor domain (I29) | 19 | 74 | 7.1E-8 |
| 2 | g15893.t1 | Pfam | PF00112 | Papain family cysteine protease | 104 | 320 | 1.2E-64 |
| 12 | g15893.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 13 | g15893.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 14 | g15893.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 13 | - |
| 15 | g15893.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 18 | - |
| 11 | g15893.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 327 | - |
| 19 | g15893.t1 | ProSitePatterns | PS00639 | Eukaryotic thiol (cysteine) proteases histidine active site. | 267 | 277 | - |
| 18 | g15893.t1 | ProSitePatterns | PS00640 | Eukaryotic thiol (cysteine) proteases asparagine active site. | 285 | 304 | - |
| 21 | g15893.t1 | SMART | SM00848 | Inhibitor_I29_2 | 19 | 76 | 4.7E-8 |
| 20 | g15893.t1 | SMART | SM00645 | pept_c1 | 104 | 322 | 1.1E-77 |
| 8 | g15893.t1 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 17 | 320 | 3.73E-86 |
| 9 | g15893.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 14 | - |
| 17 | g15893.t1 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 14 | - |
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