General information for g14086.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Methionine–tRNA ligase, cytoplasmic.
Parent gene
- The parent gene g14086 is located on chr_1: 34524721..34533291 (- 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 | g14086 | g14086.t6 | TTS | g14086.t6 | 34523708 | 34523708 |
| chr_1 | g14086 | g14086.t6 | isoform | g14086.t6 | 34523794 | 34533291 |
| chr_1 | g14086 | g14086.t6 | exon | g14086.t6.exon1 | 34523794 | 34523926 |
| chr_1 | g14086 | g14086.t6 | cds | g14086.t6.CDS1 | 34523794 | 34523926 |
| chr_1 | g14086 | g14086.t6 | exon | g14086.t6.exon2 | 34523986 | 34524811 |
| chr_1 | g14086 | g14086.t6 | cds | g14086.t6.CDS2 | 34523986 | 34524674 |
| chr_1 | g14086 | g14086.t6 | exon | g14086.t6.exon3 | 34533281 | 34533291 |
| chr_1 | g14086 | g14086.t6 | TSS | g14086.t6 | NA | NA |
Sequences
>g14086.t6 Gene=g14086 Length=970
CATTATAAAAGGTTTCGAGAGCAAAGTATTTTATGTGTGGTTTGATGCACCAATTGGTTA
TATTTCAATCACTAGCAAATATACAAAAGAATGGCGAAAATGGTGGCAACCAGCAGATCC
ATCAACAAAGGTTGAACTATTTCAATTTATGGCAAAGGACAATGTACCTTTCCATTCAGT
CATGTTCCCAGCGACACTTATTGGCGTTAATAAAGGCTACACTCTCGTTTCACGTATCCT
TTCGATTGAATATTTGAACTATGAGGATGGAAAATTCAGTAAAAGTCGTGGAATTGGAGT
TTTTGGAAATGATGCACAAGATACTGGTATCGAATCTGATATTTGGCGTTTCTATCTCGC
CTCAGCACGACCAGAAGGTCAAGATTCTAGCTTCAGTTGGAGTGAATTGGCTTCTAGAAA
TAATTCTGAATTGCTCAACAACCTGGGTAATTTCATTAATCGTGCTTTAGTGTTCTGTGA
GAAGAACTTCAATTCAACTATTTCGAATATTACATTGAACCATGATGATGCTGTTTTATT
AGCTGTTATTAACAGAGAAATTAGAGAGTATGTTAATTCCATGGAAAAAACAAGATTCCG
TGATGGTATTCGTCACATTTTGGCGATTTCAAGACAAGGAAACTTATACATGCAGAATGA
GAAGCCATGGGTCCTTCTTAAAGGAACTGCCGAACAAAAAACAAGAGCTCATAGTGTTAT
CAGTTTAAGTTGTAACATTGCATGTTTGTTAGCTAATCTTCTCTATCCGTTTATGCCAGC
AACATCAAGAAAGATTTTCACACAACTCAACTTTGCAGGCGGTGCAATTAATCCAACGAA
ACCACATTTGACAGTTCTTCTTCAAACTGGACATCAAATTGGAAAACCATCTCCACTGTT
TGCTAAAATTGACCAGGCTACTGTTGATCAATTGAAAGCCAAGTACTCAGGTGTTCAAGT
TACAGCTTAA
>g14086.t6 Gene=g14086 Length=273
MAKDNVPFHSVMFPATLIGVNKGYTLVSRILSIEYLNYEDGKFSKSRGIGVFGNDAQDTG
IESDIWRFYLASARPEGQDSSFSWSELASRNNSELLNNLGNFINRALVFCEKNFNSTISN
ITLNHDDAVLLAVINREIREYVNSMEKTRFRDGIRHILAISRQGNLYMQNEKPWVLLKGT
AEQKTRAHSVISLSCNIACLLANLLYPFMPATSRKIFTQLNFAGGAINPTKPHLTVLLQT
GHQIGKPSPLFAKIDQATVDQLKAKYSGVQVTA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g14086.t6 | CDD | cd07957 | Anticodon_Ia_Met | 91 | 220 | 0e+00 |
| 6 | g14086.t6 | Gene3D | G3DSA:3.40.50.620 | HUPs | 1 | 97 | 0e+00 |
| 7 | g14086.t6 | Gene3D | G3DSA:1.10.730.10 | - | 98 | 253 | 0e+00 |
| 3 | g14086.t6 | PANTHER | PTHR45765 | METHIONINE–TRNA LIGASE | 1 | 270 | 0e+00 |
| 2 | g14086.t6 | Pfam | PF09334 | tRNA synthetases class I (M) | 1 | 106 | 0e+00 |
| 1 | g14086.t6 | Pfam | PF08264 | Anticodon-binding domain of tRNA ligase | 127 | 219 | 7e-07 |
| 4 | g14086.t6 | SUPERFAMILY | SSF52374 | Nucleotidylyl transferase | 2 | 94 | 0e+00 |
| 5 | g14086.t6 | SUPERFAMILY | SSF47323 | Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 95 | 254 | 0e+00 |
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.
