General information for g6357.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cysteine proteinase 3.
Parent gene
- The parent gene g6357 is located on chr_2: 16467612..16468633 (- 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_2 | g6357 | g6357.t12 | TTS | g6357.t12 | 16466747 | 16466747 |
| chr_2 | g6357 | g6357.t12 | isoform | g6357.t12 | 16467165 | 16468633 |
| chr_2 | g6357 | g6357.t12 | exon | g6357.t12.exon1 | 16467165 | 16467533 |
| chr_2 | g6357 | g6357.t12 | cds | g6357.t12.CDS1 | 16467166 | 16467533 |
| chr_2 | g6357 | g6357.t12 | exon | g6357.t12.exon2 | 16467589 | 16467612 |
| chr_2 | g6357 | g6357.t12 | cds | g6357.t12.CDS2 | 16467589 | 16467612 |
| chr_2 | g6357 | g6357.t12 | exon | g6357.t12.exon3 | 16468031 | 16468123 |
| chr_2 | g6357 | g6357.t12 | cds | g6357.t12.CDS3 | 16468031 | 16468123 |
| chr_2 | g6357 | g6357.t12 | exon | g6357.t12.exon4 | 16468183 | 16468633 |
| chr_2 | g6357 | g6357.t12 | cds | g6357.t12.CDS4 | 16468183 | 16468633 |
| chr_2 | g6357 | g6357.t12 | TSS | g6357.t12 | 16468659 | 16468659 |
Sequences
>g6357.t12 Gene=g6357 Length=937
ATGAATTACAAATTAATTTTTATTTCATCATTTTTGTTAATTTCACAATCAACGCAATTA
TTTATTGACAATCCAAAACTTTCCACATGGATGATGGAAAATGGTGAAAAGTTTTTTAAT
CTTAGTGAATCAATTCTAACAAAAGTGCAACAAAGTGTGCTAGACAATTTACAAATTATT
GAAAAACACAATAAGGAAGTGAGCGATTTTATACTTGGATTAAATGAATTTTCTGATTTA
GATAAAAAAGAATTTGTGAAATGTTATTGCAAAACTGTAATGCCAAAACAATTTTTACCT
GATCGACCAAAGCTGGCGAGAGCTAAAGCATTGAATAATTTTACTATTGATAATTTACCA
GAATCATTTAGTTGGAAGGAGCATTTTGAACGTGTGAAAATGCAAGGAAAATGTGGAAGT
TGTTATGCATTTTCTGTCACTTCTATGTTAGAGGCAATGAATAAAAAGAAAAATAGTAGC
TGGAATTATGAATTATCACCACAATATATTCTTGATTGTGATAGTAAAAATGATGGTTGT
GACGGTGGCTGGCCAGCTGAATCATTAATGTTTTTAAAATATAAATCTAAAAATGAAGCT
CCAACACTAGAAAATTATCCATATATTAAAAAACAAAAAGAATGTAAAATGACTGGTTTC
CCAAAAGTAAAACTCAATATTGATGAAGTTTTTGAATTTAAATTTAGAGGCGATGAAAAA
CAAATGAGACTTCACTTAGTTAATTATGGTCCATTAGTTATAACTATGCATGTCAATGAT
GACACAGGTTTATTTCAAAACTACAAGAAAGGAATTTTCTATGAAAAAGAATGCTCAAAT
GATTGTAAAATAATTAATCATGCAATGGTTTTGATTGGATATGGAGTCACAAATGATGAT
GAAAAGAAACCTTATTATTTAGTTTTAAATTCTTGGG
>g6357.t12 Gene=g6357 Length=312
MNYKLIFISSFLLISQSTQLFIDNPKLSTWMMENGEKFFNLSESILTKVQQSVLDNLQII
EKHNKEVSDFILGLNEFSDLDKKEFVKCYCKTVMPKQFLPDRPKLARAKALNNFTIDNLP
ESFSWKEHFERVKMQGKCGSCYAFSVTSMLEAMNKKKNSSWNYELSPQYILDCDSKNDGC
DGGWPAESLMFLKYKSKNEAPTLENYPYIKKQKECKMTGFPKVKLNIDEVFEFKFRGDEK
QMRLHLVNYGPLVITMHVNDDTGLFQNYKKGIFYEKECSNDCKIINHAMVLIGYGVTNDD
EKKPYYLVLNSW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g6357.t12 | CDD | cd02248 | Peptidase_C1A | 120 | 312 | 4.87506E-57 |
| 10 | g6357.t12 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 26 | 312 | 3.6E-62 |
| 3 | g6357.t12 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 51 | 312 | 1.2E-37 |
| 4 | g6357.t12 | PANTHER | PTHR12411:SF57 | CATHEPSIN L1 | 51 | 312 | 1.2E-37 |
| 7 | g6357.t12 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 135 | 150 | 3.8E-6 |
| 6 | g6357.t12 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 287 | 297 | 3.8E-6 |
| 5 | g6357.t12 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 305 | 311 | 3.8E-6 |
| 1 | g6357.t12 | Pfam | PF08246 | Cathepsin propeptide inhibitor domain (I29) | 30 | 85 | 4.0E-7 |
| 2 | g6357.t12 | Pfam | PF00112 | Papain family cysteine protease | 119 | 312 | 1.1E-42 |
| 12 | g6357.t12 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 13 | g6357.t12 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 14 | g6357.t12 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 13 | - |
| 15 | g6357.t12 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 17 | - |
| 11 | g6357.t12 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 312 | - |
| 18 | g6357.t12 | ProSitePatterns | PS00139 | Eukaryotic thiol (cysteine) proteases cysteine active site. | 135 | 146 | - |
| 17 | g6357.t12 | ProSitePatterns | PS00639 | Eukaryotic thiol (cysteine) proteases histidine active site. | 285 | 295 | - |
| 19 | g6357.t12 | SMART | SM00645 | pept_c1 | 119 | 312 | 7.5E-33 |
| 8 | g6357.t12 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 29 | 312 | 5.61E-62 |
| 9 | g6357.t12 | 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