General information for g7483.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Probable valine–tRNA ligase, cytoplasmic.
Parent gene
- The parent gene g7483 is located on chr_2: 23969069..23970930 (+ 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 | g7483 | g7483.t6 | TSS | g7483.t6 | 23968934 | 23968934 |
| chr_2 | g7483 | g7483.t6 | isoform | g7483.t6 | 23969069 | 23969455 |
| chr_2 | g7483 | g7483.t6 | exon | g7483.t6.exon1 | 23969069 | 23969455 |
| chr_2 | g7483 | g7483.t6 | cds | g7483.t6.CDS1 | 23969167 | 23969454 |
| chr_2 | g7483 | g7483.t6 | TTS | g7483.t6 | NA | NA |
Sequences
>g7483.t6 Gene=g7483 Length=387
TTGAAGGATTTTCTGGACTTGGAAGATTCGACGCTCGAGAAAAGATTCTCAATAGTTTGG
TTGACTTAAACTTACTGCGTGGATCAAAATCTCACAAAATGATTTTACCTATATGTTCAC
GATCAAAAGATATCATTGAATTCATGATAAAACCTCAATGGTTTGTAAAATGTAATGATC
TCTCAAAACAAGCTGTTGAAGCAGTTGAAACTGGTCAATTGAAAATTAATCCACAAATAT
TTGAAAAAGAATGGTTTAGATGGTTAACAAATTGCCGCGATTGGTGCATTTCTCGACAAC
TTTGGTGGGGTCATCAAATTCCTGCTTATAAATTTCAACAAGAAAATGAAGAAATATGGA
TTGCAGCTAAATCACAAGAAGAGGCAG
>g7483.t6 Gene=g7483 Length=96
MILPICSRSKDIIEFMIKPQWFVKCNDLSKQAVEAVETGQLKINPQIFEKEWFRWLTNCR
DWCISRQLWWGHQIPAYKFQQENEEIWIAAKSQEEA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g7483.t6 | Gene3D | G3DSA:3.40.50.620 | HUPs | 1 | 96 | 0 |
| 2 | g7483.t6 | PANTHER | PTHR11946:SF62 | RE41093P | 1 | 96 | 0 |
| 3 | g7483.t6 | PANTHER | PTHR11946 | VALYL-TRNA SYNTHETASES | 1 | 96 | 0 |
| 1 | g7483.t6 | Pfam | PF00133 | tRNA synthetases class I (I, L, M and V) | 3 | 89 | 0 |
| 4 | g7483.t6 | SUPERFAMILY | SSF52374 | Nucleotidylyl transferase | 4 | 91 | 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:0005524 | ATP binding | MF |
| GO:0006418 | tRNA aminoacylation for protein translation | BP |
| GO:0000166 | nucleotide binding | MF |
| GO:0004812 | aminoacyl-tRNA ligase activity | MF |
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.
