General information for g7483.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Valine–tRNA ligase.
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.t4 | TSS | g7483.t4 | 23967942 | 23967942 |
| chr_2 | g7483 | g7483.t4 | isoform | g7483.t4 | 23967943 | 23969069 |
| chr_2 | g7483 | g7483.t4 | exon | g7483.t4.exon1 | 23967943 | 23968072 |
| chr_2 | g7483 | g7483.t4 | exon | g7483.t4.exon2 | 23968118 | 23969069 |
| chr_2 | g7483 | g7483.t4 | cds | g7483.t4.CDS1 | 23968216 | 23969067 |
| chr_2 | g7483 | g7483.t4 | TTS | g7483.t4 | NA | NA |
Sequences
>g7483.t4 Gene=g7483 Length=1082
CTGTGTTTATTTTGTTCAACAACATGATCTTTAAATATCAAAATTTTAACATTACTAAAA
ATAAAGTAAAAACTATTACACGACGGTGTTCAAATTCTTCTTTGCAAAAAGATGTATTTA
TAAACAGTGAAGCAACTTAAAATTGCCGCATATCAACCTAAATTAATTGAAAACAAAAAT
GTCTGGAATATTAGAAATATTCGATCAACATCTAAAGAGAAGTTTTCAATGATTTTTCCA
CCGCCAAATGTGACAGGAAATATTCATTTAGGACATGCATTAACAGCAACAATTCAAGAT
GTAATAATTCGATGGAAGAGAAAGCAAAATTTCGACACACAGTGGATATTTGGAACTGAT
CATGCTGGAATAGCTACTCAATTAATTTTGGAAAAGATTTTATTCAAACGAGAGAACAAA
ACGAGACATGAAATTGGTAGAGAGCAATTTTTAAAAGAAACATGGAATTGGAAAAATGAA
AAAAATTCAAGTATAAAAAACGATTTAAAAAGATTGGGTTCAACTTTTAATTGGGAAAAA
GAGTACTTCACAATGGATCAAAATCTAAGTGAGGCAGTAAATGAAGCTTTTATAAGACTT
TTTGATAAAGGACTCATTTATAGAGAAAATTCATTAGTAAATTGGTGTTGCTCGTTAGAA
TCCGCAATATCGGATGTTGAAATTGAAAGCCTTGAAGTTGATGGCAAAACGTCTATATCT
ATTCCGAATTATGAAAAAAATATAACTGTAGGAATTCTAACCGAATTTGCTTACAAAATT
GTTGATTCAGATGAAGAAATTGTAGTGTCAACGACGCGACCAGAAACTATGCTTGCAGAT
TCAGCTGTTGCTGTCAATCCAAACGATCCTCGTTACTCTCATCTTAATAATATTAAATTG
CATCATCCATACAGAAATGAAAGTATTCCTCTAATATTTGATGAATCAGTAGATGTTAAT
TTTGGCACTGGTGCAGTAAAAATTACTCCAGCTCATGATAAGAATGATTTTGAAGTGGGA
AAGAGACATGATTTGCAATTTATTCAATTGATTACTGAAAACGGTTTGATTAGAGATAGT
TT
>g7483.t4 Gene=g7483 Length=284
MIFPPPNVTGNIHLGHALTATIQDVIIRWKRKQNFDTQWIFGTDHAGIATQLILEKILFK
RENKTRHEIGREQFLKETWNWKNEKNSSIKNDLKRLGSTFNWEKEYFTMDQNLSEAVNEA
FIRLFDKGLIYRENSLVNWCCSLESAISDVEIESLEVDGKTSISIPNYEKNITVGILTEF
AYKIVDSDEEIVVSTTRPETMLADSAVAVNPNDPRYSHLNNIKLHHPYRNESIPLIFDES
VDVNFGTGAVKITPAHDKNDFEVGKRHDLQFIQLITENGLIRDS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g7483.t4 | Gene3D | G3DSA:3.40.50.620 | HUPs | 1 | 160 | 9.1E-47 |
| 8 | g7483.t4 | Gene3D | G3DSA:3.90.740.10 | - | 172 | 284 | 1.0E-37 |
| 2 | g7483.t4 | PANTHER | PTHR11946:SF62 | RE41093P | 1 | 283 | 1.3E-139 |
| 3 | g7483.t4 | PANTHER | PTHR11946 | VALYL-TRNA SYNTHETASES | 1 | 283 | 1.3E-139 |
| 1 | g7483.t4 | Pfam | PF00133 | tRNA synthetases class I (I, L, M and V) | 3 | 283 | 2.6E-91 |
| 6 | g7483.t4 | ProSitePatterns | PS00178 | Aminoacyl-transfer RNA synthetases class-I signature. | 6 | 17 | - |
| 4 | g7483.t4 | SUPERFAMILY | SSF52374 | Nucleotidylyl transferase | 3 | 156 | 2.82E-51 |
| 5 | g7483.t4 | SUPERFAMILY | SSF50677 | ValRS/IleRS/LeuRS editing domain | 173 | 283 | 5.89E-43 |
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:0002161 | aminoacyl-tRNA editing activity | 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.
