General information for g4703.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Probable leucine–tRNA ligase, mitochondrial.
Parent gene
- The parent gene g4703 is located on chr_2: 4317860..4318972 (+ 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 | g4703 | g4703.t2 | isoform | g4703.t2 | 4316867 | 4317860 |
| chr_2 | g4703 | g4703.t2 | exon | g4703.t2.exon1 | 4316867 | 4317860 |
| chr_2 | g4703 | g4703.t2 | cds | g4703.t2.CDS1 | 4316877 | 4317860 |
| chr_2 | g4703 | g4703.t2 | TTS | g4703.t2 | 4317908 | 4317908 |
| chr_2 | g4703 | g4703.t2 | TSS | g4703.t2 | NA | NA |
Sequences
>g4703.t2 Gene=g4703 Length=994
AGTTCAAGGAATGGTCAAAGGAAAAACTTTTCGTGCTAAAGGTACAGGAAAATATTTGAC
ACCAGTCGAAGTTGATGTGATTGATGAGAAGAAAGGAAAAGTATTTGTTAAAGGAACACA
AGAGCCAGTTGAAATTTCATGGGAAAAAATGTCAAAGTCAAAATTTAATGGAGTCGATCC
AATTGAAGTCATCAATACACATGGCTGTGACACTACTCGTTTAATAATTTTAGCTGACGT
GGCACCTACATCACATAGAAATTGGTCAGAAGATACTTTTCCTGGAATTATAAACTGGCA
AAAAAGATTATGGATGACATTGCATGATTTTCATTATATTAGAGAAAAAGTTGGTGAAAT
TGAGAAATCTGACAAATTTAATGAACATGAAGAAAAGCTACTCGATGCATGCAATTATTT
CGCTAGTGGTGCAACTTTTAATTTTAGAGTTTCTTATCAAATCAGTGTGGCTATTTCACA
AATGCAAGGACTTACAAGTGCAATTCGACGAGCACCAACAGATGTTATTGCCTTTGGTGA
ACAATATGAACGTGCACTTTCTGCACAAATTATCATGCTTGCAGCACTTGCTCCTCACTT
TGCATCTGAATTATGGAGTAGATTTGTAACAGCTCCAAATCGAGTTTTAGTAAAATCAAA
TTATTTTGACTGGAATTTAGATGTTCTTCAACAGAGATGGCCAAAAGTTGATCCAGATTA
TAAAATTAATTTCACAGTAAAAGTCGATAATCATATTGTCCATAAAACTAAAATTCCATG
TAGCATACTCAATCAAATGAGCAAAGAAGAAGCAACAAGAATAGGACTCGAGTATCCAAA
AGTTATCAAATTTCTCAAAAAGAAATCTGTTATTGAAAGTCATTGGCAATTGTATACAGA
TTATGGAGGTACATTAAATTTAACAACTGAAAAGAAATCAATAGAAAATTTAGATGAGGA
TTGTAATGAAAAAGAACAGGTAATTAATAAATGA
>g4703.t2 Gene=g4703 Length=327
MVKGKTFRAKGTGKYLTPVEVDVIDEKKGKVFVKGTQEPVEISWEKMSKSKFNGVDPIEV
INTHGCDTTRLIILADVAPTSHRNWSEDTFPGIINWQKRLWMTLHDFHYIREKVGEIEKS
DKFNEHEEKLLDACNYFASGATFNFRVSYQISVAISQMQGLTSAIRRAPTDVIAFGEQYE
RALSAQIIMLAALAPHFASELWSRFVTAPNRVLVKSNYFDWNLDVLQQRWPKVDPDYKIN
FTVKVDNHIVHKTKIPCSILNQMSKEEATRIGLEYPKVIKFLKKKSVIESHWQLYTDYGG
TLNLTTEKKSIENLDEDCNEKEQVINK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g4703.t2 | Coils | Coil | Coil | 304 | 327 | - |
| 4 | g4703.t2 | Gene3D | G3DSA:1.10.730.10 | - | 26 | 291 | 3.2E-34 |
| 1 | g4703.t2 | PANTHER | PTHR43740 | LEUCYL-TRNA SYNTHETASE | 1 | 287 | 3.9E-49 |
| 2 | g4703.t2 | SUPERFAMILY | SSF52374 | Nucleotidylyl transferase | 43 | 96 | 2.57E-11 |
| 3 | g4703.t2 | SUPERFAMILY | SSF47323 | Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 96 | 237 | 4.45E-13 |
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:0004823 | leucine-tRNA ligase activity | MF |
| GO:0005524 | ATP binding | MF |
| GO:0006418 | tRNA aminoacylation for protein translation | BP |
| GO:0000166 | nucleotide binding | MF |
| GO:0006429 | leucyl-tRNA aminoacylation | BP |
| 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.
