General information for g7654.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Vacuolar protein sorting-associated protein VTA1-like protein.
Parent gene
- The parent gene g7654 is located on chr_2: 25092501..25093186 (+ 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 | g7654 | g7654.t5 | TSS | g7654.t5 | 25092084 | 25092084 |
| chr_2 | g7654 | g7654.t5 | isoform | g7654.t5 | 25092159 | 25093186 |
| chr_2 | g7654 | g7654.t5 | exon | g7654.t5.exon1 | 25092159 | 25092240 |
| chr_2 | g7654 | g7654.t5 | exon | g7654.t5.exon2 | 25092305 | 25092446 |
| chr_2 | g7654 | g7654.t5 | cds | g7654.t5.CDS1 | 25092431 | 25092446 |
| chr_2 | g7654 | g7654.t5 | exon | g7654.t5.exon3 | 25092513 | 25093186 |
| chr_2 | g7654 | g7654.t5 | cds | g7654.t5.CDS2 | 25092513 | 25093186 |
| chr_2 | g7654 | g7654.t5 | TTS | g7654.t5 | 25093267 | 25093267 |
Sequences
>g7654.t5 Gene=g7654 Length=898
ATGGCTGAAGCACCAACAGGTTTAAAACATATTCAAGCTTATTTGAAAATTGCAGCCGAT
CATGATCAAAGAGATGCTGTTGTCGCTTATTGGGCAAGAGTTTATTCATTACAAACTGGA
ATTAAGAGTGCAAAACAGCCTGATGAAAAAAGATTTCTTTTGAAAATTATGGATTGGTTA
GAAGGATTCAAAAAAGCTAACAAAGATAATGAATCAATTAGTGATTGCGCAAGCCTATCT
CGAGAATTATGCTCATCGTCTCTTTACTTATGCTGATCAGCAAGACAGAGCATCAAATTT
TGGAAAAAATGTCGTTAAATCATTTTATACATCAGCAATGATTTATGACATTCTTACAGT
TCTCGGAGAATTGAGTGAAGAAGCAAAGCAAAATCGAAAATACGCAAAGTGGAAAGCTGC
TTATATTCATAATTGTTTGAAAAATGGTGAACAACCACATCCCGGTCCACTTCCTAATGA
AGAAGATGATGAATTACTCAATCTTGATGGATCTAATTCGACTCCAAGTGAGCCTGGTTC
ATCTTCATCTATGGGCTGGAATACTCAACCTAATCAACCTGAAACTTCTCCTCAGCAACC
ATCACCTCCTTCAAATACAAACACATTTAATAATGATCCATTCATGAACATTAGAGCTCC
TTCTCCACCAAAAGATCCTGAAGAGAAAAATCCAGGTGGTTTTGTTGCTTTTGATCCTGA
ACAATCAAATATTCCTGTGCCTCCACAATCGAAGGCAGCTATTTCCCCTGAAATGATGAT
AAAGGCGCAAAAGTATTGCAAATTTGCTGGCAGTGCTCTTACATATGAAGATGTTCCTAC
TGCTATTGAAAATTTGCAAAAAGCATTAAGATTACTCACAACTGGACAAGATTCATAA
>g7654.t5 Gene=g7654 Length=229
MNQLVIAQAYLENYAHRLFTYADQQDRASNFGKNVVKSFYTSAMIYDILTVLGELSEEAK
QNRKYAKWKAAYIHNCLKNGEQPHPGPLPNEEDDELLNLDGSNSTPSEPGSSSSMGWNTQ
PNQPETSPQQPSPPSNTNTFNNDPFMNIRAPSPPKDPEEKNPGGFVAFDPEQSNIPVPPQ
SKAAISPEMMIKAQKYCKFAGSALTYEDVPTAIENLQKALRLLTTGQDS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g7654.t5 | Gene3D | G3DSA:1.25.40.270 | - | 1 | 83 | 1.2E-30 |
| 6 | g7654.t5 | Gene3D | G3DSA:1.20.5.420 | Immunoglobulin FC | 187 | 225 | 4.9E-14 |
| 4 | g7654.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 102 | 136 | - |
| 5 | g7654.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 102 | 125 | - |
| 3 | g7654.t5 | PANTHER | PTHR46009 | VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN VTA1 HOMOLOG | 5 | 226 | 7.7E-55 |
| 1 | g7654.t5 | Pfam | PF04652 | Vta1 like | 6 | 79 | 2.0E-21 |
| 2 | g7654.t5 | Pfam | PF18097 | Vta1 C-terminal domain | 187 | 224 | 3.6E-18 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
