General information for g9826.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Autophagy protein 5.
Parent gene
- The parent gene g9826 is located on chr_1: 5415728..5416620 (- 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_1 | g9826 | g9826.t4 | TTS | g9826.t4 | 5411467 | 5411467 |
| chr_1 | g9826 | g9826.t4 | isoform | g9826.t4 | 5411645 | 5416620 |
| chr_1 | g9826 | g9826.t4 | exon | g9826.t4.exon1 | 5411645 | 5411713 |
| chr_1 | g9826 | g9826.t4 | exon | g9826.t4.exon2 | 5411819 | 5411862 |
| chr_1 | g9826 | g9826.t4 | exon | g9826.t4.exon3 | 5415728 | 5415836 |
| chr_1 | g9826 | g9826.t4 | exon | g9826.t4.exon4 | 5415894 | 5416323 |
| chr_1 | g9826 | g9826.t4 | cds | g9826.t4.CDS1 | 5416012 | 5416323 |
| chr_1 | g9826 | g9826.t4 | exon | g9826.t4.exon5 | 5416480 | 5416620 |
| chr_1 | g9826 | g9826.t4 | cds | g9826.t4.CDS2 | 5416480 | 5416620 |
| chr_1 | g9826 | g9826.t4 | TSS | g9826.t4 | 5416720 | 5416720 |
Sequences
>g9826.t4 Gene=g9826 Length=793
ATGGCAAATGATAGAGAAGTGTTAAAAGTAGTGTGGGAAGGCAAAATTCCTGCCAAATTC
GTGATAGATTCGAATGACAATGATGAAGTTTATTATTTGAATCTCCCTAGAATTTCTTAT
TTTGCATTATGCACAGATAAAATTTTTAATGAAACTATCTTTTTAATTATTCAAACAATA
AATATTACTCTAGGTGTGATTTATGATCTTTTGGTCAGTGACAACTCATTACCATGGCAA
ATTAATGTTCACTTCAATAAATTCCCAGAAGATATTCTCTTTAAATTTCCAAATAAAGAT
GTTATAGAAAGTCATTTCTTAAGTTGTTTGAAGGAAGCTGATTTTCTTAAACACAAAGGT
CAAGTCATTTGCCAACTTCAGAAAAAAGATCACAAACAACTATTTCTTGGCTTGCAAAAT
GACAAATTTGATCAATTCTGGGCAGGTGAGTGATAAAATGCTAAATTTATTAATAGAATA
ACTTATGCAATTAACAGTCAATAGAAGATTAATGGAAACGACAGAACAAGAAAATGGTTT
TAAAAATCTCCCTTTGCGATGTTATACAGATGACGGATATTCTTATCTACAAAAACTCAT
CACACCATTGACGGAGAAAGGACAGAAAAAAACGCTTAAAGATTTACTTGTCGAGTTTTC
GACACCTGCGAAAAAGCCAGTTGGCGCTAAAACTCATGGAATTGAAGTTCCTTTAGAAAC
AGAGCTTCAATGGCTCAGCGAGACTCTCAGCTATCCTGACAATTTTCTACACTTGTGTTT
GATCTACGAATGA
>g9826.t4 Gene=g9826 Length=150
MANDREVLKVVWEGKIPAKFVIDSNDNDEVYYLNLPRISYFALCTDKIFNETIFLIIQTI
NITLGVIYDLLVSDNSLPWQINVHFNKFPEDILFKFPNKDVIESHFLSCLKEADFLKHKG
QVICQLQKKDHKQLFLGLQNDKFDQFWAGE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g9826.t4 | Gene3D | G3DSA:3.10.20.620 | - | 15 | 97 | 0 |
| 4 | g9826.t4 | Gene3D | G3DSA:1.10.246.190 | - | 98 | 148 | 0 |
| 2 | g9826.t4 | PANTHER | PTHR13040 | AUTOPHAGY PROTEIN 5 | 2 | 148 | 0 |
| 1 | g9826.t4 | Pfam | PF04106 | Autophagy protein Apg5 | 62 | 147 | 0 |
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:0006914 | autophagy | BP |
| GO:0005737 | cytoplasm | CC |
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.
