General information for g5856.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5856 is located on chr_2: 12432935..12433674 (+ 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 | g5856 | g5856.t3 | TSS | g5856.t3 | 12432846 | 12432846 |
| chr_2 | g5856 | g5856.t3 | isoform | g5856.t3 | 12432849 | 12433674 |
| chr_2 | g5856 | g5856.t3 | exon | g5856.t3.exon1 | 12432849 | 12433674 |
| chr_2 | g5856 | g5856.t3 | cds | g5856.t3.CDS1 | 12432935 | 12433270 |
| chr_2 | g5856 | g5856.t3 | TTS | g5856.t3 | 12433704 | 12433704 |
Sequences
>g5856.t3 Gene=g5856 Length=826
TTGTGCTTAGTAATTCATAAAAATAAGTCATGAGTAAAAAATTGTCGGCAATTTTATATC
ATAATTGTGTCAGTCCGCCTTCAAGGATGTGTTTACTTGCAATTCGCAACCTTGGACTAG
ACATTGAAATTCGTAATATCGACATTTACAAAGGAGAACAAAATACACCAGAATTTTTAA
AAATAAATCCATTGCATCAAGTTCCAACTCTCGTTCATGAAGATTTCACTTTAACTGAGT
CAAGAGCAATCATGATGTATCTCGCAACTATCGCAGATTCACCGCTTTATCCACGCAATG
ATTTAAAAAAGCGAGCACTTGTTGATTCAAGATTATTTTATGATGCAACAAATTCATTTG
TCGCTGTCAAAGATTTTGCTGTGAGAGTTTTTGTATTCTTATCATTTCTTAAAACTCGCT
AATTAAATTTTACTTTTTTTAGCGACCCGTGTTGAGATCGGGAGTGAAAAAAATCTCACC
AGCAGCTAGAGAAGGCATCAAAGTTTTGCTAAGTACACTCGATTCTTTCCTTCAATCATC
AGCATATTTTGCTGGTGAAGAATTAACTTTGGCTGATTTAGCCATTCTTGCTAGTGTTGG
AACTATCAAAGTAAAGCTTTTTACAATGCCATAAAAATTCAATTTTCAAATAAAAATGTT
TATCTTTTATTTTTAGTGTTGGGGTGTAAACTTGAAAGAATTTCCAAAACTAAATGATTG
GTTTGATCGTTGCAAGTCATTGCCTGGATTTGCTGAAAATAACGAAGGCTCGCAAATTTT
AGCTGAAAAATTGACAAAATTGTTAGAAGAACCATTATGGAAATAA
>g5856.t3 Gene=g5856 Length=111
MCLLAIRNLGLDIEIRNIDIYKGEQNTPEFLKINPLHQVPTLVHEDFTLTESRAIMMYLA
TIADSPLYPRNDLKKRALVDSRLFYDATNSFVAVKDFAVRVFVFLSFLKTR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g5856.t3 | Gene3D | G3DSA:3.40.30.10 | Glutaredoxin | 1 | 63 | 0.0000000 |
| 5 | g5856.t3 | Gene3D | G3DSA:1.20.1050.10 | - | 64 | 109 | 0.0000039 |
| 2 | g5856.t3 | PANTHER | PTHR43969:SF9 | GLUTATHIONE S TRANSFERASE D10, ISOFORM A-RELATED | 2 | 100 | 0.0000000 |
| 3 | g5856.t3 | PANTHER | PTHR43969 | GLUTATHIONE S TRANSFERASE D10, ISOFORM A-RELATED | 2 | 100 | 0.0000000 |
| 1 | g5856.t3 | Pfam | PF02798 | Glutathione S-transferase, N-terminal domain | 2 | 60 | 0.0000000 |
| 7 | g5856.t3 | ProSiteProfiles | PS50404 | Soluble glutathione S-transferase N-terminal domain profile. | 1 | 67 | 16.5440000 |
| 8 | g5856.t3 | SFLD | SFLDS00019 | Glutathione Transferase (cytosolic) | 2 | 89 | 0.0000000 |
| 4 | g5856.t3 | SUPERFAMILY | SSF52833 | Thioredoxin-like | 3 | 69 | 0.0000000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5856/g5856.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5856.t3.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0006749 | glutathione metabolic process | BP |
| GO:0005515 | protein binding | MF |
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