General information for g11138.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable glutamate–tRNA ligase, mitochondrial.
Parent gene
- The parent gene g11138 is located on chr_1: 14309496..14311841 (+ 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 | g11138 | g11138.t6 | TSS | g11138.t6 | 14307782 | 14307782 |
| chr_1 | g11138 | g11138.t6 | isoform | g11138.t6 | 14307844 | 14308752 |
| chr_1 | g11138 | g11138.t6 | exon | g11138.t6.exon1 | 14307844 | 14307941 |
| chr_1 | g11138 | g11138.t6 | exon | g11138.t6.exon2 | 14308006 | 14308752 |
| chr_1 | g11138 | g11138.t6 | cds | g11138.t6.CDS1 | 14308140 | 14308751 |
| chr_1 | g11138 | g11138.t6 | TTS | g11138.t6 | 14309565 | 14309565 |
Sequences
>g11138.t6 Gene=g11138 Length=845
CTATTTTAAAAGAATAATTAATGAAGACTTGTTTAAAATCAGCCGAAAATATAGTACTGA
TAAAGAAGTACGAGTGAGATTTGCTCCATCACCAACTGGATTTTTACATCTTGGTGGATT
AAGGACAGCATTGTTCAATTATCTTTTTGCAAAAGCTAATAATGGTAAATTCATTTTAAG
AATAGAGGATACTGATCAAACAAGACTTGTTGAGGGTGCAACAGAACAATTAATGAGAGA
TTTAGAATGGGCTGGTATGAGAGCAGATGAGGGGCCGCTTGAATACGGAGGAAATTTTGG
TCCATATATACAAAGTCAACGATTAGACATTTATCAAAAACACATTCAAACGCTACTTGA
AAATGGTAGCGCATATCATTGTTTTTGCAGTGAAAGAAGACTTGAATTATTGAGAAAAGA
AGCTTTAAAAGCACGCCAAATTCCTAAATATGACAACAGATGCAGACATCTCACTCCAGG
ACAAATTGCAGAAAAAATTGCAAAGGGTGACAAATATTGTATAAGATTTAAATTACATGA
TACTGGTGAATCATTTATTGATTTAATCTATGGAAATTATGTCTACTATGTCGCACAAAA
TGAGGGCGATCCTGTTATTCTTAAAAGTGATGGTTATCCTACTTATCATTTTGCAAATGT
CGTTGATGACCATTTAATGGAAATAAGTCATGTGTTGAGAGGAGTAGAATGGCAGATATC
TACACCAAAGCATTTAATGATGTATAGAGCATTAGGATTTACACCACCTGTTTTCGGACA
TTTGCCACTTATAATGAATGCAGATGGAAGCAAGTTAAGTAAGAGACAAAACGATATTAA
ACTTG
>g11138.t6 Gene=g11138 Length=204
MRDLEWAGMRADEGPLEYGGNFGPYIQSQRLDIYQKHIQTLLENGSAYHCFCSERRLELL
RKEALKARQIPKYDNRCRHLTPGQIAEKIAKGDKYCIRFKLHDTGESFIDLIYGNYVYYV
AQNEGDPVILKSDGYPTYHFANVVDDHLMEISHVLRGVEWQISTPKHLMMYRALGFTPPV
FGHLPLIMNADGSKLSKRQNDIKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11138.t6 | Gene3D | G3DSA:3.40.50.620 | HUPs | 1 | 204 | 0 |
| 2 | g11138.t6 | PANTHER | PTHR43311:SF2 | GLUTAMATE–TRNA LIGASE, MITOCHONDRIAL-RELATED | 2 | 203 | 0 |
| 3 | g11138.t6 | PANTHER | PTHR43311 | GLUTAMATE–TRNA LIGASE | 2 | 203 | 0 |
| 1 | g11138.t6 | Pfam | PF00749 | tRNA synthetases class I (E and Q), catalytic domain | 2 | 202 | 0 |
| 4 | g11138.t6 | SUPERFAMILY | SSF52374 | Nucleotidylyl transferase | 2 | 201 | 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:0043039 | 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.
