General information for g11814.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Vacuolar protein-sorting-associated protein 25.
Parent gene
- The parent gene g11814 is located on chr_1: 18531181..18531652 (+ 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 | g11814 | g11814.t1 | TSS | g11814.t1 | 18530969 | 18530969 |
| chr_1 | g11814 | g11814.t1 | isoform | g11814.t1 | 18531053 | 18531652 |
| chr_1 | g11814 | g11814.t1 | exon | g11814.t1.exon1 | 18531053 | 18531108 |
| chr_1 | g11814 | g11814.t1 | cds | g11814.t1.CDS1 | 18531053 | 18531108 |
| chr_1 | g11814 | g11814.t1 | exon | g11814.t1.exon2 | 18531181 | 18531652 |
| chr_1 | g11814 | g11814.t1 | cds | g11814.t1.CDS2 | 18531181 | 18531652 |
| chr_1 | g11814 | g11814.t1 | TTS | g11814.t1 | 18531685 | 18531685 |
Sequences
>g11814.t1 Gene=g11814 Length=528
ATGACAGAATCAGAATTCGATTTTCCTTGGGAATACAATTTTCCTCCATTCTTTACAATT
CAAAAACATGCCGAAACTAGAAAACAGCAATTTCTTCGTTGGAAGGAACTTATTTTAGCA
TATGCAAAACATAAAAATCAGGCGATTATTAATATAAATGATGAGTCTGAATTATTTCAC
AATAATAAAATCAATAGAACCTTAGACAGAGAATCAAGGGAAATGATTTTAAATGAACTA
TGTAATTCAAGTAACGCAGCAAGAGTGAACAAGAACACGGGAACTTATGAAATTTATTGG
TTGACAATAGAAGAATGGTCAAATGTCATCTATACATATGCTTTAAACAGTGGAATGACT
AATTCGGTGCTTACATTTTTTGAACTTCTTAATGGTGATGACAGTAAAGATCAAGAATTT
CATCAGTTAAATGAACAAGTTTTTATGAAAGCTCTTAAACATTTGGAAACAAAAGGAAAA
TGTGAAATAATGGAAATAGATGGAAGCTTTGGTGTAAAATTTTTTTAA
>g11814.t1 Gene=g11814 Length=175
MTESEFDFPWEYNFPPFFTIQKHAETRKQQFLRWKELILAYAKHKNQAIININDESELFH
NNKINRTLDRESREMILNELCNSSNAARVNKNTGTYEIYWLTIEEWSNVIYTYALNSGMT
NSVLTFFELLNGDDSKDQEFHQLNEQVFMKALKHLETKGKCEIMEIDGSFGVKFF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g11814.t1 | Gene3D | G3DSA:1.10.10.570 | - | 2 | 98 | 0 |
| 7 | g11814.t1 | Gene3D | G3DSA:1.10.10.10 | winged helix repressor DNA binding domain | 99 | 175 | 0 |
| 2 | g11814.t1 | PANTHER | PTHR13149:SF0 | VACUOLAR PROTEIN-SORTING-ASSOCIATED PROTEIN 25 | 3 | 175 | 0 |
| 3 | g11814.t1 | PANTHER | PTHR13149 | VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN VPS25 | 3 | 175 | 0 |
| 1 | g11814.t1 | Pfam | PF05871 | ESCRT-II complex subunit | 11 | 143 | 0 |
| 5 | g11814.t1 | SUPERFAMILY | SSF46785 | Winged helix DNA-binding domain | 6 | 106 | 0 |
| 4 | g11814.t1 | SUPERFAMILY | SSF46785 | Winged helix DNA-binding domain | 102 | 174 | 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:0071985 | multivesicular body sorting pathway | BP |
| GO:0000814 | ESCRT II complex | CC |
KEGG
Orthology
- This transcript has been annotated with K12189 (ESCRT-II complex subunit VPS25)
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.
