General information for g4405.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative cysteine proteinase CG12163.
Parent gene
- The parent gene g4405 is located on chr_2: 2005157..2008641 (- 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 | g4405 | g4405.t3 | isoform | g4405.t3 | 2000903 | 2002007 |
| chr_2 | g4405 | g4405.t3 | exon | g4405.t3.exon1 | 2000903 | 2001377 |
| chr_2 | g4405 | g4405.t3 | cds | g4405.t3.CDS1 | 2001294 | 2001377 |
| chr_2 | g4405 | g4405.t3 | exon | g4405.t3.exon2 | 2001442 | 2001689 |
| chr_2 | g4405 | g4405.t3 | cds | g4405.t3.CDS2 | 2001442 | 2001689 |
| chr_2 | g4405 | g4405.t3 | exon | g4405.t3.exon3 | 2001757 | 2002007 |
| chr_2 | g4405 | g4405.t3 | cds | g4405.t3.CDS3 | 2001757 | 2001892 |
| chr_2 | g4405 | g4405.t3 | TSS | g4405.t3 | NA | NA |
| chr_2 | g4405 | g4405.t3 | TTS | g4405.t3 | NA | NA |
Sequences
>g4405.t3 Gene=g4405 Length=974
TGTTACAGGAAATATTGAAGGCTTACATGCTATTAAAACTGGAAAACTTGAAGCTTATTC
TGAACAAGAACTTTTGGACTGTGATACAACTGATAATGCTTGCAATGGTGGTTATATGGA
TGATGCTTTTAAAGCAATTGAAAAAATTGGTGGTCTAGAATTAGAAGATGAATATCCTTA
TCAAGCAAGGAAACAAAAGAAATGCTTGTTTAATGCTACTATGAGTCATGTTAAAGTTAA
AGGTGTTGTAGATTTGCCTAAAGGTGATGAAATTGCAATGCAAAAGTTTTTAGTCTCAAC
TGGTCCGATTTCCATTGGCATAAATGCTAATGCTATGCAATTTTATCGTGGTGGTGTTTC
GCATCCATGGAAAGTTCTTTGCAGAAAATCTAATTTAGATCATGGTGTTTTGATTGTTGG
ATATGGAATAAAAGAGTATCCCATGTTTAATAAAACTTTACCTTATTGGACTATTAAAAA
TTCATGGGGTCCAAAATGGGGTGAACAAGGATATTATCGAGTTTATCGTGGAGATAACAG
TTGTGGAGTTGCAGAAATGGCAAGCAGCGCAGTACTTGAATAAAAAGTATCATGTTTTTT
TGCTCAACATTAAGTAGATTAGATTTATTGACAATAAAAAATATTGAACCCTAATGAACA
ATAATGAAACTTCGAATAAGATTTGAAAAAAATTAAATACTCCAAAAGAAATTCCGTTTC
GACTATTTGAAGTAGATGATGTTAAAATTTTAAAAATAATTTTGATGTATACTTACTTAT
TAAATTGAATAATAAAGATTTATTTTATTCTCTTTCAAATTACCTACTACTAATTTTATA
TTGAAATAGTTTCCAAATGCTTTGTAAAACTTGAAATAAAAATTTTTCACATAGGTTTTC
ATCTCATTAAAGGCGATTCTGTGAATAAATCTTTCTACAAAAATCTCTCTTTTTTAATGT
TTCTCTTCAAATAA
>g4405.t3 Gene=g4405 Length=155
MDDAFKAIEKIGGLELEDEYPYQARKQKKCLFNATMSHVKVKGVVDLPKGDEIAMQKFLV
STGPISIGINANAMQFYRGGVSHPWKVLCRKSNLDHGVLIVGYGIKEYPMFNKTLPYWTI
KNSWGPKWGEQGYYRVYRGDNSCGVAEMASSAVLE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g4405.t3 | CDD | cd02248 | Peptidase_C1A | 1 | 152 | 2.09078E-55 |
| 8 | g4405.t3 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 1 | 154 | 7.9E-42 |
| 2 | g4405.t3 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 3 | 152 | 1.2E-42 |
| 3 | g4405.t3 | PANTHER | PTHR12411:SF444 | CATHEPSIN F | 3 | 152 | 1.2E-42 |
| 1 | g4405.t3 | Pfam | PF00112 | Papain family cysteine protease | 1 | 152 | 1.7E-39 |
| 7 | g4405.t3 | ProSitePatterns | PS00639 | Eukaryotic thiol (cysteine) proteases histidine active site. | 94 | 104 | - |
| 6 | g4405.t3 | ProSitePatterns | PS00640 | Eukaryotic thiol (cysteine) proteases asparagine active site. | 117 | 136 | - |
| 5 | g4405.t3 | SMART | SM00645 | pept_c1 | 2 | 153 | 1.3E-16 |
| 4 | g4405.t3 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 1 | 154 | 2.63E-46 |
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.
