General information for g2645.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Vacuolar protein sorting-associated protein 26.
Parent gene
- The parent gene g2645 is located on chr_3: 19306226..19306934 (+ 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_3 | g2645 | g2645.t6 | TSS | g2645.t6 | 19304175 | 19304175 |
| chr_3 | g2645 | g2645.t6 | isoform | g2645.t6 | 19304257 | 19305349 |
| chr_3 | g2645 | g2645.t6 | exon | g2645.t6.exon1 | 19304257 | 19304463 |
| chr_3 | g2645 | g2645.t6 | cds | g2645.t6.CDS1 | 19304398 | 19304463 |
| chr_3 | g2645 | g2645.t6 | exon | g2645.t6.exon2 | 19304724 | 19304790 |
| chr_3 | g2645 | g2645.t6 | cds | g2645.t6.CDS2 | 19304724 | 19304790 |
| chr_3 | g2645 | g2645.t6 | exon | g2645.t6.exon3 | 19304862 | 19305027 |
| chr_3 | g2645 | g2645.t6 | cds | g2645.t6.CDS3 | 19304862 | 19305027 |
| chr_3 | g2645 | g2645.t6 | exon | g2645.t6.exon4 | 19305101 | 19305349 |
| chr_3 | g2645 | g2645.t6 | cds | g2645.t6.CDS4 | 19305101 | 19305347 |
| chr_3 | g2645 | g2645.t6 | TTS | g2645.t6 | 19306293 | 19306293 |
Sequences
>g2645.t6 Gene=g2645 Length=689
ATGGTAAAATAGGCTCATACAGTACACGAAACTCGTCTTAACACTTTCATTATATTGCAG
AACTTTCTGGGATTCGGGCAAACAGCAGATATTGATGTAGTTTTTGCGGACAGTGAAAAC
AGAAAATATGCTGATTGTCGAATGGACGAGAATGGAAAAAAGGAAAAATTATTACTCTAT
TATGATGGAGAAACGATTTCGGGAAAGGTCAACGTAACGTTAAAGAAACCAGGCACTAAG
CTTGAACATCAGGGAATAAAAATCGAATTGATAGGCCAAATTGAATTATTCTATGATCGC
GGAAATCATCATGAATTTTTGACACAGCTCAAAGAGCTTGCACGTCATGGTGATCTTATT
AAAAACACCAGCTATCCATTTGAATTTCCAAATGTAGAAAAGCCGTATGAAGTGTATACG
GGCTCTAATGTTCGATTGAGATATTTTCTTCGTGTGACAATTGTTCGACGAATCAGTGAT
ATTGTACGTGAAATCGATATTGCTGTTCATACATTAAGCAGCTATCCGGAAATGAATAGT
CCGATCAAAATGGAAGTTGGAATTGAAGACTGCCTTCACATAGAATTTGAGTACAACAAG
AGCAAATATCATCTAAAAGATGTCATTGTGGGAAAAATTTATTTTTTGTTGGTTCGCATC
AAAATTAAGCATATGGAAATAGCTATAAT
>g2645.t6 Gene=g2645 Length=182
MDENGKKEKLLLYYDGETISGKVNVTLKKPGTKLEHQGIKIELIGQIELFYDRGNHHEFL
TQLKELARHGDLIKNTSYPFEFPNVEKPYEVYTGSNVRLRYFLRVTIVRRISDIVREIDI
AVHTLSSYPEMNSPIKMEVGIEDCLHIEFEYNKSKYHLKDVIVGKIYFLLVRIKIKHMEI
AI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2645.t6 | Gene3D | G3DSA:2.60.40.640 | - | 1 | 127 | 0.0e+00 |
| 6 | g2645.t6 | Gene3D | G3DSA:2.60.40.640 | - | 128 | 182 | 0.0e+00 |
| 2 | g2645.t6 | PANTHER | PTHR12233:SF1 | VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN 26 | 2 | 182 | 0.0e+00 |
| 3 | g2645.t6 | PANTHER | PTHR12233 | VACUOLAR PROTEIN SORTING 26 RELATED | 2 | 182 | 0.0e+00 |
| 1 | g2645.t6 | Pfam | PF03643 | Vacuolar protein sorting-associated protein 26 | 3 | 182 | 0.0e+00 |
| 4 | g2645.t6 | SUPERFAMILY | SSF81296 | E set domains | 12 | 131 | 2.9e-06 |
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:0006886 | intracellular protein transport | 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.
