General information for g8130.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Autophagy-related protein 2 homolog A.
Parent gene
- The parent gene g8130 is located on chr_2: 28705811..28709967 (- 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 | g8130 | g8130.t3 | isoform | g8130.t3 | 28705811 | 28709967 |
| chr_2 | g8130 | g8130.t3 | exon | g8130.t3.exon1 | 28705811 | 28706474 |
| chr_2 | g8130 | g8130.t3 | cds | g8130.t3.CDS1 | 28705811 | 28706474 |
| chr_2 | g8130 | g8130.t3 | TTS | g8130.t3 | 28705812 | 28705812 |
| chr_2 | g8130 | g8130.t3 | exon | g8130.t3.exon2 | 28706540 | 28706642 |
| chr_2 | g8130 | g8130.t3 | cds | g8130.t3.CDS2 | 28706540 | 28706642 |
| chr_2 | g8130 | g8130.t3 | exon | g8130.t3.exon3 | 28706697 | 28706852 |
| chr_2 | g8130 | g8130.t3 | cds | g8130.t3.CDS3 | 28706697 | 28706852 |
| chr_2 | g8130 | g8130.t3 | exon | g8130.t3.exon4 | 28707810 | 28707981 |
| chr_2 | g8130 | g8130.t3 | cds | g8130.t3.CDS4 | 28707810 | 28707981 |
| chr_2 | g8130 | g8130.t3 | exon | g8130.t3.exon5 | 28709797 | 28709967 |
| chr_2 | g8130 | g8130.t3 | cds | g8130.t3.CDS5 | 28709797 | 28709967 |
| chr_2 | g8130 | g8130.t3 | TSS | g8130.t3 | 28710523 | 28710523 |
Sequences
>g8130.t3 Gene=g8130 Length=1266
ATGCTGTGGTTTAACATAGGAATTAGTGATTTTATAAAGAAGCGAGTGTGCAAATTTTTA
CTAAATAGATATCTGGGAAATTATTTTGAGGAAAAGCTTACAGTGAATCAAATTTGCCTT
GATTTATACAATGGCAAAGGTTCTGTGGCAAATGTAAAATTATGTTGCGAGGCAATTAAC
AGTTTATTTGAAGCACAAGGATGGGATTTTGAAATTACAAATGGCGAGATTGGCTCGCTT
GCGGTTGACATACCGTGGAATAGTCTTATGTCAGAGGATTCGGTTGTTGAAGTAAATAAT
TTGTACATTTGCCTTAGACCACAAGCACGCGCTAAAGATGATGGGACTACAATGCTTGAA
TCAATGTGGAGCTCAATGAGCTCATCAATGCAACTCGCGCAAGAATGTTTAGAGAAAAAT
GAGGATCCAGAACTCGAAGTCCCATCAAGCTCATCAAATTTGGAGGGATTGGAAAAATTC
GCACAAACTATTGATAATATTTTGATTCGAGTTAAAGTGAAACTAATAAACACTACAATA
AGATTGGAATATCTTCCGAAAGATTCAAATACAGGAATTGCAATCATAGTTAAAATTAAA
AGTTTAGGCTATCAGAATGAAGCAAGAAATGATGCACCTGATAAAGAGGACAGTGAGAAG
AGTGATCAGAAAACAATTGTATTTTCAACACATTCTTCTCATTATATTACATTAGATGAT
ATTTCTTTCTATTCTGAGGAATTTCGAATAGGTTCCAAGAAAGAAGAAATAATAGTGACA
AAAAGAAGTCGTCATAGTTCCAGTAAATCAGAAAATGAAAATGTCGTTGATGATGAACAG
GAGGAAGAAGACTCATCGTCATTAGATCCATTTGCTAGTGCTATTTCAAGTTTCTCACCA
GACAATGAAATGTTTTATAGTCAGAGCACGATGACAGAAAATGAGTGTAAAAATCGAAAA
ATAGAAGAAAGTGATGATGATGAATGTGAAGGTGAAGAAATTCACAGATCGGAAATGATA
TTGATGGGATGCATGAAGAGTAGACAAGAAATTAGAATTAACATGAAATTAGATGAAAAC
ATTGCTGGGCCAAAAGTATCACTTGAAGTTACATTCGGTAGCCTTTTGCTCTTTTTTACA
CCACGCCAATTTCACATGTTGCTTTTACTCTGTGATATTTTACTCAACGGTGAGGAGACG
CCATCGAGTAGTACTGATGCAGACGAAAACAATAAACATTTATTAAGAGAAAAATTGAAA
GCGGCA
>g8130.t3 Gene=g8130 Length=422
MLWFNIGISDFIKKRVCKFLLNRYLGNYFEEKLTVNQICLDLYNGKGSVANVKLCCEAIN
SLFEAQGWDFEITNGEIGSLAVDIPWNSLMSEDSVVEVNNLYICLRPQARAKDDGTTMLE
SMWSSMSSSMQLAQECLEKNEDPELEVPSSSSNLEGLEKFAQTIDNILIRVKVKLINTTI
RLEYLPKDSNTGIAIIVKIKSLGYQNEARNDAPDKEDSEKSDQKTIVFSTHSSHYITLDD
ISFYSEEFRIGSKKEEIIVTKRSRHSSSKSENENVVDDEQEEEDSSSLDPFASAISSFSP
DNEMFYSQSTMTENECKNRKIEESDDDECEGEEIHRSEMILMGCMKSRQEIRINMKLDEN
IAGPKVSLEVTFGSLLLFFTPRQFHMLLLLCDILLNGEETPSSSTDADENNKHLLREKLK
AA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g8130.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 259 | 290 | - |
| 4 | g8130.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 259 | 274 | - |
| 2 | g8130.t3 | PANTHER | PTHR13190 | AUTOPHAGY-RELATED 2, ISOFORM A | 1 | 408 | 5.3E-68 |
| 1 | g8130.t3 | Pfam | PF12624 | N-terminal region of Chorein or VPS13 | 15 | 133 | 1.6E-21 |
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 |
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