General information for g4405.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 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.t2 | isoform | g4405.t2 | 2000903 | 2001680 |
| chr_2 | g4405 | g4405.t2 | exon | g4405.t2.exon1 | 2000903 | 2001377 |
| chr_2 | g4405 | g4405.t2 | cds | g4405.t2.CDS1 | 2001294 | 2001377 |
| chr_2 | g4405 | g4405.t2 | exon | g4405.t2.exon2 | 2001442 | 2001680 |
| chr_2 | g4405 | g4405.t2 | cds | g4405.t2.CDS2 | 2001442 | 2001663 |
| chr_2 | g4405 | g4405.t2 | TSS | g4405.t2 | NA | NA |
| chr_2 | g4405 | g4405.t2 | TTS | g4405.t2 | NA | NA |
Sequences
>g4405.t2 Gene=g4405 Length=714
AAGGTGATGAAATTGCAATGCAAAAGTTTTTAGTCTCAACTGGTCCGATTTCCATTGGCA
TAAATGCTAATGCTATGCAATTTTATCGTGGTGGTGTTTCGCATCCATGGAAAGTTCTTT
GCAGAAAATCTAATTTAGATCATGGTGTTTTGATTGTTGGATATGGAATAAAAGAGTATC
CCATGTTTAATAAAACTTTACCTTATTGGACTATTAAAAATTCATGGGGTCCAAAATGGG
GTGAACAAGGATATTATCGAGTTTATCGTGGAGATAACAGTTGTGGAGTTGCAGAAATGG
CAAGCAGCGCAGTACTTGAATAAAAAGTATCATGTTTTTTTGCTCAACATTAAGTAGATT
AGATTTATTGACAATAAAAAATATTGAACCCTAATGAACAATAATGAAACTTCGAATAAG
ATTTGAAAAAAATTAAATACTCCAAAAGAAATTCCGTTTCGACTATTTGAAGTAGATGAT
GTTAAAATTTTAAAAATAATTTTGATGTATACTTACTTATTAAATTGAATAATAAAGATT
TATTTTATTCTCTTTCAAATTACCTACTACTAATTTTATATTGAAATAGTTTCCAAATGC
TTTGTAAAACTTGAAATAAAAATTTTTCACATAGGTTTTCATCTCATTAAAGGCGATTCT
GTGAATAAATCTTTCTACAAAAATCTCTCTTTTTTAATGTTTCTCTTCAAATAA
>g4405.t2 Gene=g4405 Length=101
MQKFLVSTGPISIGINANAMQFYRGGVSHPWKVLCRKSNLDHGVLIVGYGIKEYPMFNKT
LPYWTIKNSWGPKWGEQGYYRVYRGDNSCGVAEMASSAVLE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g4405.t2 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 1 | 101 | 3.0E-29 |
| 2 | g4405.t2 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 4 | 98 | 8.0E-30 |
| 3 | g4405.t2 | PANTHER | PTHR12411:SF444 | CATHEPSIN F | 4 | 98 | 8.0E-30 |
| 1 | g4405.t2 | Pfam | PF00112 | Papain family cysteine protease | 1 | 98 | 5.8E-27 |
| 6 | g4405.t2 | ProSitePatterns | PS00639 | Eukaryotic thiol (cysteine) proteases histidine active site. | 40 | 50 | - |
| 5 | g4405.t2 | ProSitePatterns | PS00640 | Eukaryotic thiol (cysteine) proteases asparagine active site. | 63 | 82 | - |
| 4 | g4405.t2 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 1 | 100 | 2.42E-34 |
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.
