General information for g5328.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5328 is located on chr_2: 8868331..8869278 (- 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 | g5328 | g5328.t3 | TTS | g5328.t3 | 8868205 | 8868205 |
| chr_2 | g5328 | g5328.t3 | isoform | g5328.t3 | 8868331 | 8869278 |
| chr_2 | g5328 | g5328.t3 | exon | g5328.t3.exon1 | 8868331 | 8868672 |
| chr_2 | g5328 | g5328.t3 | cds | g5328.t3.CDS1 | 8868660 | 8868672 |
| chr_2 | g5328 | g5328.t3 | exon | g5328.t3.exon2 | 8868728 | 8869278 |
| chr_2 | g5328 | g5328.t3 | cds | g5328.t3.CDS2 | 8868728 | 8869278 |
| chr_2 | g5328 | g5328.t3 | TSS | g5328.t3 | 8869381 | 8869381 |
Sequences
>g5328.t3 Gene=g5328 Length=893
ATGTTAGAAATTTCAGACCTTTTTAATATGGAAAGAAAAACTTACAACTTTGAACAGGAG
CTAGATTTAGGTGAAAATATTTTTACGAACAAATTGGGAATATGGAAAATTTTCTTGACT
GTAACTGAAATAATTTGTGATCATCAGCATCATCAACATTCACGTTATGGTGGTATAAAG
AAAATTTATAATGGATTTATTTCACTTCATGATGATGAATCAACATTGGGAGCAAAAAGA
AAATTCAATGATATGAGAATAGCACTTGAAATTGGACCATCAAATTATGATACTTCTTAT
TCGACAGTCGCAACATGCATTAAAACAAACGTCTTTTATTTTTCAATAAATAAAGTCACT
TTTGCCATATCAAATGTGAAATTTTTTGTTCAATATGAGGAACAAGTTTTACCTAAATAT
ACTGGCTCACAACTTCATTTAAAGAATTTATTTGAAACTGCAAACGATTCAGATTTTACA
ATCATAGCTGGAGGAAGAGAATTGAAAGTTCACAGAATAGTTTTAAAACGTTCAGACATG
TTTGATAAAATAGTTATGAAGTGATTTATGAACTTTGTCGTTTTCTCTACTACGACCATT
TTGATGAAAATCTCGCAGTTGATTTAATTATGGCAGCAAATAAATATCAAGTCAATGATT
TATTTGAGAAATTAGAAAAATATTTGGAAAATAACATTACAAAGGAAAATTTCTTTGATG
TTTTCATTCATGCTGATCTGGTCAAGTCAAATATTCTCAAGAAAAGTGTCATTGATTTTG
TTATTAAAAATAGAAAGGAAATTTTCAAAACTGAATTGTGGAAGGAACTTAAGACAAATC
ATGTGCAACTTGCTATGCTTGTTTATGAGAAATTTATGCTCGAACATCCTTAA
>g5328.t3 Gene=g5328 Length=187
MLEISDLFNMERKTYNFEQELDLGENIFTNKLGIWKIFLTVTEIICDHQHHQHSRYGGIK
KIYNGFISLHDDESTLGAKRKFNDMRIALEIGPSNYDTSYSTVATCIKTNVFYFSINKVT
FAISNVKFFVQYEEQVLPKYTGSQLHLKNLFETANDSDFTIIAGGRELKVHRIVLKRSDM
FDKIVMK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g5328.t3 | Gene3D | G3DSA:3.30.710.10 | Potassium Channel Kv1.1; Chain A | 132 | 187 | 0.0000042 |
| g5328.t3 | ProSiteProfiles | PS50097 | BTB domain profile. | 157 | 187 | 8.9380000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5328/g5328.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5328.t3.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| 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