General information for g5328.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein maternal effect lethal 26.
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.t1 | TTS | g5328.t1 | 8868205 | 8868205 |
| chr_2 | g5328 | g5328.t1 | isoform | g5328.t1 | 8868331 | 8869278 |
| chr_2 | g5328 | g5328.t1 | exon | g5328.t1.exon1 | 8868331 | 8869278 |
| chr_2 | g5328 | g5328.t1 | cds | g5328.t1.CDS1 | 8868331 | 8869278 |
| chr_2 | g5328 | g5328.t1 | TSS | g5328.t1 | 8869381 | 8869381 |
Sequences
>g5328.t1 Gene=g5328 Length=948
ATGTTAGAAATTTCAGACCTTTTTAATATGGAAAGAAAAACTTACAACTTTGAACAGGAG
CTAGATTTAGGTGAAAATATTTTTACGAACAAATTGGGAATATGGAAAATTTTCTTGACT
GTAACTGAAATAATTTGTGATCATCAGCATCATCAACATTCACGTTATGGTGGTATAAAG
AAAATTTATAATGGATTTATTTCACTTCATGATGATGAATCAACATTGGGAGCAAAAAGA
AAATTCAATGATATGAGAATAGCACTTGAAATTGGACCATCAAATTATGATACTTCTTAT
TCGACAGTCGCAACATGCATTAAAACAAACGTCTTTTATTTTTCAATAAATAAAGTCACT
TTTGCCATATCAAATGTGAAATTTTTTGTTCAATATGAGGAACAAGTTTTACCTAAATAT
ACTGGCTCACAACTTCATTTAAAGAATTTATTTGAAACTGCAAACGATTCAGATTTTACA
ATCATAGCTGGAGGAAGAGAATTGAAAGTTCACAGAATAGTTTTAAAACGTTCAGACATG
TTTGATAAAATGTTGAGCAATGAGGAAACTTCTGAAGCACAATCAGGAATCGCAAGAGTT
GTTGAGAGTTATGAAGTGATTTATGAACTTTGTCGTTTTCTCTACTACGACCATTTTGAT
GAAAATCTCGCAGTTGATTTAATTATGGCAGCAAATAAATATCAAGTCAATGATTTATTT
GAGAAATTAGAAAAATATTTGGAAAATAACATTACAAAGGAAAATTTCTTTGATGTTTTC
ATTCATGCTGATCTGGTCAAGTCAAATATTCTCAAGAAAAGTGTCATTGATTTTGTTATT
AAAAATAGAAAGGAAATTTTCAAAACTGAATTGTGGAAGGAACTTAAGACAAATCATGTG
CAACTTGCTATGCTTGTTTATGAGAAATTTATGCTCGAACATCCTTAA
>g5328.t1 Gene=g5328 Length=315
MLEISDLFNMERKTYNFEQELDLGENIFTNKLGIWKIFLTVTEIICDHQHHQHSRYGGIK
KIYNGFISLHDDESTLGAKRKFNDMRIALEIGPSNYDTSYSTVATCIKTNVFYFSINKVT
FAISNVKFFVQYEEQVLPKYTGSQLHLKNLFETANDSDFTIIAGGRELKVHRIVLKRSDM
FDKMLSNEETSEAQSGIARVVESYEVIYELCRFLYYDHFDENLAVDLIMAANKYQVNDLF
EKLEKYLENNITKENFFDVFIHADLVKSNILKKSVIDFVIKNRKEIFKTELWKELKTNHV
QLAMLVYEKFMLEHP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g5328.t1 | Gene3D | G3DSA:3.30.710.10 | Potassium Channel Kv1.1; Chain A | 140 | 246 | 0.000 |
| 6 | g5328.t1 | Gene3D | G3DSA:1.25.40.420 | - | 250 | 314 | 0.000 |
| 2 | g5328.t1 | PANTHER | PTHR24413:SF213 | FI01029P-RELATED | 110 | 309 | 0.000 |
| 3 | g5328.t1 | PANTHER | PTHR24413 | SPECKLE-TYPE POZ PROTEIN | 110 | 309 | 0.000 |
| 1 | g5328.t1 | Pfam | PF00651 | BTB/POZ domain | 147 | 250 | 0.000 |
| 8 | g5328.t1 | ProSiteProfiles | PS50097 | BTB domain profile. | 157 | 223 | 11.854 |
| 5 | g5328.t1 | SMART | SM00225 | BTB_4 | 157 | 251 | 0.000 |
| 4 | g5328.t1 | SUPERFAMILY | SSF54695 | POZ domain | 146 | 251 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5328/g5328.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5328.t1.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.
