General information for g5328.t4
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.t4 | TTS | g5328.t4 | 8868205 | 8868205 |
| chr_2 | g5328 | g5328.t4 | isoform | g5328.t4 | 8868331 | 8869278 |
| chr_2 | g5328 | g5328.t4 | exon | g5328.t4.exon1 | 8868331 | 8868781 |
| chr_2 | g5328 | g5328.t4 | cds | g5328.t4.CDS1 | 8868331 | 8868729 |
| chr_2 | g5328 | g5328.t4 | exon | g5328.t4.exon2 | 8868835 | 8869278 |
| chr_2 | g5328 | g5328.t4 | TSS | g5328.t4 | 8869381 | 8869381 |
Sequences
>g5328.t4 Gene=g5328 Length=895
ATGTTAGAAATTTCAGACCTTTTTAATATGGAAAGAAAAACTTACAACTTTGAACAGGAG
CTAGATTTAGGTGAAAATATTTTTACGAACAAATTGGGAATATGGAAAATTTTCTTGACT
GTAACTGAAATAATTTGTGATCATCAGCATCATCAACATTCACGTTATGGTGGTATAAAG
AAAATTTATAATGGATTTATTTCACTTCATGATGATGAATCAACATTGGGAGCAAAAAGA
AAATTCAATGATATGAGAATAGCACTTGAAATTGGACCATCAAATTATGATACTTCTTAT
TCGACAGTCGCAACATGCATTAAAACAAACGTCTTTTATTTTTCAATAAATAAAGTCACT
TTTGCCATATCAAATGTGAAATTTTTTGTTCAATATGAGGAACAAGTTTTACCTAAATAT
ACTGGCTCACAACTTCATTTAAAGAGAATTGAAAGTTCACAGAATAGTTTTAAAACGTTC
AGACATGTTTGATAAAATGTTGAGCAATGAGGAAACTTCTGAAGCACAATCAGGAATCGC
AAGAGTTGTTGAGAGTTATGAAGTGATTTATGAACTTTGTCGTTTTCTCTACTACGACCA
TTTTGATGAAAATCTCGCAGTTGATTTAATTATGGCAGCAAATAAATATCAAGTCAATGA
TTTATTTGAGAAATTAGAAAAATATTTGGAAAATAACATTACAAAGGAAAATTTCTTTGA
TGTTTTCATTCATGCTGATCTGGTCAAGTCAAATATTCTCAAGAAAAGTGTCATTGATTT
TGTTATTAAAAATAGAAAGGAAATTTTCAAAACTGAATTGTGGAAGGAACTTAAGACAAA
TCATGTGCAACTTGCTATGCTTGTTTATGAGAAATTTATGCTCGAACATCCTTAA
>g5328.t4 Gene=g5328 Length=132
MLSNEETSEAQSGIARVVESYEVIYELCRFLYYDHFDENLAVDLIMAANKYQVNDLFEKL
EKYLENNITKENFFDVFIHADLVKSNILKKSVIDFVIKNRKEIFKTELWKELKTNHVQLA
MLVYEKFMLEHP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g5328.t4 | Gene3D | G3DSA:3.30.710.10 | Potassium Channel Kv1.1; Chain A | 1 | 67 | 8.1e-05 |
| 3 | g5328.t4 | Gene3D | G3DSA:1.25.40.420 | - | 68 | 131 | 0.0e+00 |
| 1 | g5328.t4 | PANTHER | PTHR24413:SF213 | FI01029P-RELATED | 20 | 126 | 0.0e+00 |
| 2 | g5328.t4 | PANTHER | PTHR24413 | SPECKLE-TYPE POZ PROTEIN | 20 | 126 | 0.0e+00 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5328/g5328.t4; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5328.t4.fa.iupred3.txt does not exist
GO terms from InterProScan
There are no GO annotations for this transcript.
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