General information for g2645.t1
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.t1 | TSS | g2645.t1 | 19304175 | 19304175 |
| chr_3 | g2645 | g2645.t1 | isoform | g2645.t1 | 19304257 | 19306226 |
| chr_3 | g2645 | g2645.t1 | exon | g2645.t1.exon1 | 19304257 | 19304259 |
| chr_3 | g2645 | g2645.t1 | cds | g2645.t1.CDS1 | 19304257 | 19304259 |
| chr_3 | g2645 | g2645.t1 | exon | g2645.t1.exon2 | 19304317 | 19304463 |
| chr_3 | g2645 | g2645.t1 | cds | g2645.t1.CDS2 | 19304317 | 19304463 |
| chr_3 | g2645 | g2645.t1 | exon | g2645.t1.exon3 | 19304724 | 19304790 |
| chr_3 | g2645 | g2645.t1 | cds | g2645.t1.CDS3 | 19304724 | 19304790 |
| chr_3 | g2645 | g2645.t1 | exon | g2645.t1.exon4 | 19304862 | 19305027 |
| chr_3 | g2645 | g2645.t1 | cds | g2645.t1.CDS4 | 19304862 | 19305027 |
| chr_3 | g2645 | g2645.t1 | exon | g2645.t1.exon5 | 19305101 | 19305372 |
| chr_3 | g2645 | g2645.t1 | cds | g2645.t1.CDS5 | 19305101 | 19305372 |
| chr_3 | g2645 | g2645.t1 | exon | g2645.t1.exon6 | 19305448 | 19306226 |
| chr_3 | g2645 | g2645.t1 | cds | g2645.t1.CDS6 | 19305448 | 19306226 |
| chr_3 | g2645 | g2645.t1 | TTS | g2645.t1 | 19307010 | 19307010 |
Sequences
>g2645.t1 Gene=g2645 Length=1434
ATGAACTTTCTGGGATTCGGGCAAACAGCAGATATTGATGTAGTTTTTGCGGACAGTGAA
AACAGAAAATATGCTGATTGTCGAATGGACGAGAATGGAAAAAAGGAAAAATTATTACTC
TATTATGATGGAGAAACGATTTCGGGAAAGGTCAACGTAACGTTAAAGAAACCAGGCACT
AAGCTTGAACATCAGGGAATAAAAATCGAATTGATAGGCCAAATTGAATTATTCTATGAT
CGCGGAAATCATCATGAATTTTTGACACAGCTCAAAGAGCTTGCACGTCATGGTGATCTT
ATTAAAAACACCAGCTATCCATTTGAATTTCCAAATGTAGAAAAGCCGTATGAAGTGTAT
ACGGGCTCTAATGTTCGATTGAGATATTTTCTTCGTGTGACAATTGTTCGACGAATCAGT
GATATTGTACGTGAAATCGATATTGCTGTTCATACATTAAGCAGCTATCCGGAAATGAAT
AGTCCGATCAAAATGGAAGTTGGAATTGAAGACTGCCTTCACATAGAATTTGAGTACAAC
AAGAGCAAATATCATCTAAAAGATGTCATTGTGGGAAAAATTTATTTTTTGTTGGTTCGC
ATCAAAATTAAGCATATGGAAATAGCTATAATTAAGAGAGAGACAACTGGTGCTGGTTCA
AATGTTTTTACTGAAAATGAAACTATAGCAAAATATGAGATTATGGATGGAGCTCCCGTC
AAAGGCGAAAGTATTCCGATTCGTGTATTTTTAGCTGGCTACGATTTGACGCCAACAATG
AGGGACATTAATAAGAAATTTTCTGTTCGCTATTTTCTCAATTTAGTCCTAATGGATACT
GAAGATCGACGTTATTTTAAACAACAGGAGATCACATTATGGCGTAAGTCAGAAAAGACA
AGAAAATCACTCTCGAATAGCGCAATAGGTGGTACAGCATCAACACAAGGAAGCACCAAT
AATCTGACACAAGCTCAGCAAAATGCAACTATGCCTACACATTTAGTTCAAGGTGCATCC
TCAATTCATACATCGTCTGATATCCAAGGAAGTCACACCTCGCCAGCTAGTTCATCTAAT
GTCGTCAGTGCTTCAGCTGCTGTTGATCATCCAAACATGGGACTATTTACAGAAGAAGAC
AGTCCACAACATGAAGCGCAATCCAAAACTCGAAGCAATCCATTAGCATTTGACACAGAC
GAAGATAAGACACCAAGCAAAGAGGAAGACGACGCACCACTTTCAGCTTCAAAAGAACAA
CCACAACAACAAAAATCTATTGATGAATCATCATCACTCTTTGATGAACCTTCAGCCACG
ATCACCGAGCAACAACAATCACAATCAAATAATACTGCAATAAGCAATAATGACGGTGAA
ATTGAAACATCAGCGGCGACGGCTGATAGAGAAGCATCAACAGCAAAGGATTAA
>g2645.t1 Gene=g2645 Length=477
MNFLGFGQTADIDVVFADSENRKYADCRMDENGKKEKLLLYYDGETISGKVNVTLKKPGT
KLEHQGIKIELIGQIELFYDRGNHHEFLTQLKELARHGDLIKNTSYPFEFPNVEKPYEVY
TGSNVRLRYFLRVTIVRRISDIVREIDIAVHTLSSYPEMNSPIKMEVGIEDCLHIEFEYN
KSKYHLKDVIVGKIYFLLVRIKIKHMEIAIIKRETTGAGSNVFTENETIAKYEIMDGAPV
KGESIPIRVFLAGYDLTPTMRDINKKFSVRYFLNLVLMDTEDRRYFKQQEITLWRKSEKT
RKSLSNSAIGGTASTQGSTNNLTQAQQNATMPTHLVQGASSIHTSSDIQGSHTSPASSSN
VVSASAAVDHPNMGLFTEEDSPQHEAQSKTRSNPLAFDTDEDKTPSKEEDDAPLSASKEQ
PQQQKSIDESSSLFDEPSATITEQQQSQSNNTAISNNDGEIETSAATADREASTAKD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g2645.t1 | Gene3D | G3DSA:2.60.40.640 | - | 1 | 155 | 1.9E-55 |
| 9 | g2645.t1 | Gene3D | G3DSA:2.60.40.640 | - | 156 | 339 | 1.3E-86 |
| 6 | g2645.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 338 | 364 | - |
| 8 | g2645.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 379 | 477 | - |
| 7 | g2645.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 395 | 415 | - |
| 5 | g2645.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 416 | 470 | - |
| 2 | g2645.t1 | PANTHER | PTHR12233:SF1 | VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN 26 | 1 | 298 | 1.5E-150 |
| 3 | g2645.t1 | PANTHER | PTHR12233 | VACUOLAR PROTEIN SORTING 26 RELATED | 1 | 298 | 1.5E-150 |
| 1 | g2645.t1 | Pfam | PF03643 | Vacuolar protein sorting-associated protein 26 | 6 | 282 | 2.2E-129 |
| 4 | g2645.t1 | SUPERFAMILY | SSF81296 | E set domains | 40 | 159 | 2.73E-5 |
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 transcript has been annotated with K18466 (vacuolar protein sorting-associated protein 26)
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.
