General information for g4405.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
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.t9 | TTS | g4405.t9 | 2001061 | 2001061 |
| chr_2 | g4405 | g4405.t9 | isoform | g4405.t9 | 2001294 | 2002236 |
| chr_2 | g4405 | g4405.t9 | exon | g4405.t9.exon1 | 2001294 | 2001377 |
| chr_2 | g4405 | g4405.t9 | exon | g4405.t9.exon2 | 2001442 | 2001697 |
| chr_2 | g4405 | g4405.t9 | cds | g4405.t9.CDS1 | 2001648 | 2001697 |
| chr_2 | g4405 | g4405.t9 | exon | g4405.t9.exon3 | 2001757 | 2002007 |
| chr_2 | g4405 | g4405.t9 | cds | g4405.t9.CDS2 | 2001757 | 2001892 |
| chr_2 | g4405 | g4405.t9 | exon | g4405.t9.exon4 | 2002061 | 2002236 |
| chr_2 | g4405 | g4405.t9 | TSS | g4405.t9 | NA | NA |
Sequences
>g4405.t9 Gene=g4405 Length=767
GAATACTTGCATAAAACTGGTTTGAGAGTGCGTGAAAGACATGAGAATGAATTAGAAAAT
CCAATTGCACATATTCCAGAAGTTGAAGATTTACCAACCGAATTTGATTGGAGAGATAAA
TCAGCAGTTACAAGTGTAAAAAATCAAGGAAATTGTGGATCATGCTGGAGTTTTTCTGTT
ACAGGAAATATTGAAGGCTTACATGCTATTAAAACTGGAAAACTTGAAGCTTATTCTGAA
CAAGAACTTTTGGACTGTGATACAACTGATAATGCTTGCAATGGTGGTTATATGGATGAT
GCTTTTAAAGCAATTGAAAAAATTGGTGGTCTAGAATTAGAAGATGAATATCCTTATCAA
GCAAGGAAACAAAAGAAATGCTTGTTTAATGCTACTATGAGTCATGTTAAAGTTAAAGGT
GTTGTAGTTTTAAAGATTTGCCTAAAGGTGATGAAATTGCAATGCAAAAGTTTTTAGTCT
CAACTGGTCCGATTTCCATTGGCATAAATGCTAATGCTATGCAATTTTATCGTGGTGGTG
TTTCGCATCCATGGAAAGTTCTTTGCAGAAAATCTAATTTAGATCATGGTGTTTTGATTG
TTGGATATGGAATAAAAGAGTATCCCATGTTTAATAAAACTTTACCTTATTGGACTATTA
AAAATTCATGGGGTCCAAAATGGGGTGAACAAGGATATTATCGAGTTTATCGTGGAGATA
ACAGTTGTGGAGTTGCAGAAATGGCAAGCAGCGCAGTACTTGAATAA
>g4405.t9 Gene=g4405 Length=61
MDDAFKAIEKIGGLELEDEYPYQARKQKKCLFNATMSHVKVKGVVVLKICLKVMKLQCKS
F
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g4405.t9 | Pfam | PF00112 | Papain family cysteine protease | 1 | 47 | 2.4e-05 |
| g4405.t9 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 1 | 49 | 1.0e-06 |
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.
