General information for g17226.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Pro-cathepsin H.
Parent gene
- The parent gene g17226 is located on chr_4: 12878873..12880573 (+ 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 | g17226 | g17226.t1 | TSS | g17226.t1 | 12878817 | 12878817 |
| chr_4 | g17226 | g17226.t1 | isoform | g17226.t1 | 12878873 | 12880573 |
| chr_4 | g17226 | g17226.t1 | exon | g17226.t1.exon1 | 12878873 | 12879323 |
| chr_4 | g17226 | g17226.t1 | cds | g17226.t1.CDS1 | 12878873 | 12879323 |
| chr_4 | g17226 | g17226.t1 | exon | g17226.t1.exon2 | 12879478 | 12879497 |
| chr_4 | g17226 | g17226.t1 | cds | g17226.t1.CDS2 | 12879478 | 12879497 |
| chr_4 | g17226 | g17226.t1 | exon | g17226.t1.exon3 | 12879689 | 12879802 |
| chr_4 | g17226 | g17226.t1 | cds | g17226.t1.CDS3 | 12879689 | 12879802 |
| chr_4 | g17226 | g17226.t1 | exon | g17226.t1.exon4 | 12879951 | 12880140 |
| chr_4 | g17226 | g17226.t1 | cds | g17226.t1.CDS4 | 12879951 | 12880140 |
| chr_4 | g17226 | g17226.t1 | exon | g17226.t1.exon5 | 12880206 | 12880337 |
| chr_4 | g17226 | g17226.t1 | cds | g17226.t1.CDS5 | 12880206 | 12880337 |
| chr_4 | g17226 | g17226.t1 | exon | g17226.t1.exon6 | 12880404 | 12880439 |
| chr_4 | g17226 | g17226.t1 | cds | g17226.t1.CDS6 | 12880404 | 12880439 |
| chr_4 | g17226 | g17226.t1 | exon | g17226.t1.exon7 | 12880497 | 12880573 |
| chr_4 | g17226 | g17226.t1 | cds | g17226.t1.CDS7 | 12880497 | 12880573 |
| chr_4 | g17226 | g17226.t1 | TTS | g17226.t1 | 12880777 | 12880777 |
Sequences
>g17226.t1 Gene=g17226 Length=1020
ATGAAGTTCAAAATTTTGACAATTTTTTTCACTTTTGTGTTAGTTTTTTCAATTCATGCT
GAAGACGATTTGACTGAAGAAGATGTAAAAGTGATTGAAGAATTTTTTAAATCAAGAAAT
TTCACTGGTCGTGCATCACGTAATGTAAGAACACCAGAAATTGAAGAACGCGTTAGAAAT
CGTTATAGAAAAATTAAAAAGCATAATGAAAGATTTAAAAAAGGCGAAGAACATTTCGAG
CAAGGATTGAATGACTTTGCACTTTTGAGTGATGGTGAAATTAAAAATTATTTTGGTTAC
AATCCGCCACCATTTGAGACTTTTGATAATGAAACTTTAGTGCCAATTATTGATCCAAAT
GCACGAAGTGGAAAAGCTGCTGAACCTGATTATTGGAACTGGGCTGAACAAGGAAATATA
GTGCAACCAGTTCAGAACCAAGGTGGTTGCGGTTCATGCTATGCATTTGCTGCAGCTGGA
GCTTTAGAAGGAAGCATGTGCAGATACTTTGGAAAATGTGTTAAACTATCTGAACAAGAA
ATGATGGAATGTACAAATGGTTGTGCTGGTGGATGGGATACTTGGGTCTATGACTATACA
ACTCTTTATAATGGTGCAACTGGAAGTTCATACAGCTATACAGGTGCTCCTAATTCATGC
AATCCATCAGCACGAGTACGTCAAGTTAATTCAATTGTAACAAGTTATAAAATTTTACCA
AATGACGAAGCAACAATTCGTTCTTATCTTTATAGATATGGTCCATTATTTACGGCTTAT
TTTGTCTACAATAATTTTAATTACTACAAGGAAGGAATTATAACAACACAAGAAGGTGAA
ATTCTTGGTGGACATGCTGTTTTAATAACTGGTTATGGAACTTCAAATGGAATTCCTTAT
TGGATTGTTAAAAATTCATGGGGAACGAACTGGGGAGAAAAAGGTTACTTCCGCATTTTA
AGAGGTAAAAATTTGATGAACATTGAAGGCTGGAAAGTTTCTTTTCCATGGACAAGATAA
>g17226.t1 Gene=g17226 Length=339
MKFKILTIFFTFVLVFSIHAEDDLTEEDVKVIEEFFKSRNFTGRASRNVRTPEIEERVRN
RYRKIKKHNERFKKGEEHFEQGLNDFALLSDGEIKNYFGYNPPPFETFDNETLVPIIDPN
ARSGKAAEPDYWNWAEQGNIVQPVQNQGGCGSCYAFAAAGALEGSMCRYFGKCVKLSEQE
MMECTNGCAGGWDTWVYDYTTLYNGATGSSYSYTGAPNSCNPSARVRQVNSIVTSYKILP
NDEATIRSYLYRYGPLFTAYFVYNNFNYYKEGIITTQEGEILGGHAVLITGYGTSNGIPY
WIVKNSWGTNWGEKGYFRILRGKNLMNIEGWKVSFPWTR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g17226.t1 | CDD | cd02248 | Peptidase_C1A | 129 | 336 | 1.67546E-72 |
| 9 | g17226.t1 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 35 | 336 | 1.8E-76 |
| 2 | g17226.t1 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 42 | 322 | 3.2E-46 |
| 3 | g17226.t1 | PANTHER | PTHR12411:SF57 | CATHEPSIN L1 | 42 | 322 | 3.2E-46 |
| 5 | g17226.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 147 | 162 | 7.8E-9 |
| 6 | g17226.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 285 | 295 | 7.8E-9 |
| 4 | g17226.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 300 | 306 | 7.8E-9 |
| 1 | g17226.t1 | Pfam | PF00112 | Papain family cysteine protease | 129 | 329 | 2.9E-55 |
| 11 | g17226.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 12 | g17226.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 13 | g17226.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 16 | - |
| 14 | g17226.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 20 | - |
| 10 | g17226.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 339 | - |
| 19 | g17226.t1 | ProSitePatterns | PS00139 | Eukaryotic thiol (cysteine) proteases cysteine active site. | 147 | 158 | - |
| 18 | g17226.t1 | ProSitePatterns | PS00639 | Eukaryotic thiol (cysteine) proteases histidine active site. | 283 | 293 | - |
| 17 | g17226.t1 | ProSitePatterns | PS00640 | Eukaryotic thiol (cysteine) proteases asparagine active site. | 300 | 319 | - |
| 20 | g17226.t1 | SMART | SM00645 | pept_c1 | 128 | 337 | 2.4E-62 |
| 7 | g17226.t1 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 60 | 331 | 1.41E-74 |
| 8 | g17226.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
| 16 | g17226.t1 | SignalP_GRAM_NEGATIVE | 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