General information for g7946.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Autophagy-related protein 13-like protein.
Parent gene
- The parent gene g7946 is located on chr_2: 27162278..27164009 (+ 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 | g7946 | g7946.t2 | TSS | g7946.t2 | 27148521 | 27148521 |
| chr_2 | g7946 | g7946.t2 | isoform | g7946.t2 | 27148576 | 27161587 |
| chr_2 | g7946 | g7946.t2 | exon | g7946.t2.exon1 | 27148576 | 27148698 |
| chr_2 | g7946 | g7946.t2 | cds | g7946.t2.CDS1 | 27148576 | 27148698 |
| chr_2 | g7946 | g7946.t2 | exon | g7946.t2.exon2 | 27156088 | 27156451 |
| chr_2 | g7946 | g7946.t2 | cds | g7946.t2.CDS2 | 27156088 | 27156451 |
| chr_2 | g7946 | g7946.t2 | exon | g7946.t2.exon3 | 27161391 | 27161587 |
| chr_2 | g7946 | g7946.t2 | cds | g7946.t2.CDS3 | 27161391 | 27161587 |
| chr_2 | g7946 | g7946.t2 | TTS | g7946.t2 | 27162277 | 27162277 |
Sequences
>g7946.t2 Gene=g7946 Length=684
ATGGACGAGATTAATAAGTATTTAAAGTTTTTAACCCTCAAATTCTCGCAAGCTGTTGTG
CAAAGTAGATTGGGAGGATTGATACATACGAAATGCAATAATTCAGGCACTGATAGTAGC
TGGTTTAATATCGCAATTCAGGATCATCCTGATGTGTTAATAGAAACAAAGAAAGCGCTA
CAATTAAGTCAAAGTGAAACCATAACAAATCGTCTACCATTATGTGTGGAAATCAGCCTT
CAAACGTCTGAAGGTGATAAAATGATATTAGAGGTTTGGTCACTAAATATCGATGAGAAA
TTGAGTGATCCGACGCTAAAAGCAAACTACAATATTTATAATCGTATGAGCATACTATTG
AAATCGTTATTATCGATAACAAGAATCACACCAGCATATAAATTAAGCAGAAGGCAGAAT
CCAGATTCATTCAGTATCTACTATAGAATTTATAGTGGAGTAATTGAACAGCAACAACAT
AATTTAGGAGAATCATATAAGCAAATAAGAATCGGATCGTTGACAACACAGATCGGCACA
ATCACCATGGCAGTCGCATATAGAACAAAAATGACAATTTCACCAACACAAACCGGTCGC
GATAATACAATCATGTTAAAGAGTGATCATTTCTTAAAAGACCTCAGTCCTAAACATTTA
CGATATACAAATTACAATAAAAAG
>g7946.t2 Gene=g7946 Length=228
MDEINKYLKFLTLKFSQAVVQSRLGGLIHTKCNNSGTDSSWFNIAIQDHPDVLIETKKAL
QLSQSETITNRLPLCVEISLQTSEGDKMILEVWSLNIDEKLSDPTLKANYNIYNRMSILL
KSLLSITRITPAYKLSRRQNPDSFSIYYRIYSGVIEQQQHNLGESYKQIRIGSLTTQIGT
ITMAVAYRTKMTISPTQTGRDNTIMLKSDHFLKDLSPKHLRYTNYNKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g7946.t2 | Gene3D | G3DSA:3.30.900.10 | Cell Cycle | 1 | 198 | 0 |
| 2 | g7946.t2 | PANTHER | PTHR13430:SF4 | AUTOPHAGY-RELATED PROTEIN 13 | 3 | 217 | 0 |
| 3 | g7946.t2 | PANTHER | PTHR13430 | UNCHARACTERIZED | 3 | 217 | 0 |
| 1 | g7946.t2 | Pfam | PF10033 | Autophagy-related protein 13 | 83 | 191 | 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:1990316 | Atg1/ULK1 kinase complex | CC |
| GO:0006914 | autophagy | BP |
| GO:0000045 | autophagosome assembly | BP |
KEGG
Orthology
- This transcript has been annotated with K08331 (autophagy-related protein 13)
Pathway
- This transcript belongs to the following pathways
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.
