General information for g11138.t8
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.t8 | TSS | g11138.t8 | 14307782 | 14307782 |
| chr_1 | g11138 | g11138.t8 | isoform | g11138.t8 | 14308015 | 14309496 |
| chr_1 | g11138 | g11138.t8 | exon | g11138.t8.exon1 | 14308015 | 14309199 |
| chr_1 | g11138 | g11138.t8 | cds | g11138.t8.CDS1 | 14308140 | 14309199 |
| chr_1 | g11138 | g11138.t8 | exon | g11138.t8.exon2 | 14309261 | 14309496 |
| chr_1 | g11138 | g11138.t8 | cds | g11138.t8.CDS2 | 14309261 | 14309496 |
| chr_1 | g11138 | g11138.t8 | TTS | g11138.t8 | 14309565 | 14309565 |
Sequences
>g11138.t8 Gene=g11138 Length=1421
ATCTTGGTGGATTAAGGACAGCATTGTTCAATTATCTTTTTGCAAAAGCTAATAATGGTA
AATTCATTTTAAGAATAGAGGATACTGATCAAACAAGACTTGTTGAGGGTGCAACAGAAC
AATTAATGAGAGATTTAGAATGGGCTGGTATGAGAGCAGATGAGGGGCCGCTTGAATACG
GAGGAAATTTTGGTCCATATATACAAAGTCAACGATTAGACATTTATCAAAAACACATTC
AAACGCTACTTGAAAATGGTAGCGCATATCATTGTTTTTGCAGTGAAAGAAGACTTGAAT
TATTGAGAAAAGAAGCTTTAAAAGCACGCCAAATTCCTAAATATGACAACAGATGCAGAC
ATCTCACTCCAGGACAAATTGCAGAAAAAATTGCAAAGGGTGACAAATATTGTATAAGAT
TTAAATTACATGATACTGGTGAATCATTTATTGATTTAATCTATGGAAATTATGTCTACT
ATGTCGCACAAAATGAGGGCGATCCTGTTATTCTTAAAAGTGATGGTTATCCTACTTATC
ATTTTGCAAATGTCGTTGATGACCATTTAATGGAAATAAGTCATGTGTTGAGAGGAGTAG
AATGGCAGATATCTACACCAAAGCATTTAATGATGTATAGAGCATTAGGATTTACACCAC
CTGTTTTCGGACATTTGCCACTTATAATGAATGCAGATGGAAGCAAGTTAAGTAAGAGAC
AAAACGATATTAAACTTGAATTCTATAAAACGAGAGGATATTTTCCACAAGCTTTGCTCA
ATTATATTACACAAGCTGGAGGAGGCTTTAATCGAGATCCAAGCGAACGATTATACTGTT
ATGATATGAAACATTTAACAAAAAAGTTTGACATTACACGAATCAATTCAAATTCTAGTC
GACTAAATCCAGAACTGTTAAATGACCTAAATCGTCTCGAATTAATTAATCAAATTGAAA
ATCCTGAGCAATGCAAAGTCCTAATTGAAAATGTTCGTACACTTATTAAAACAAAATATC
CGTTAAATGCTGATCAATTGGACCTTGATGATGATCATATATTAAGTGTCTTAAAATGGG
CATCAAAAAGAATTAGCACAATAAATGAACTAGCTGAAGAAAATCTTTCTTTTCTTTGGG
TTCTTCCTAAAATTACAAAGGACAAAGAGATTGAATTGAATGAAGCAATAATCGATTCAT
TAGTTGAAGAATTAAAAGACGAAAACTTTAATAAGCAAAATCTTCAACAAATACTCAAAG
AGTTTTCAAACGAGAAAAATCTGACGTTTGCCAACTTTATGAAAAATTTACGAACAATGT
TGAGTGGCCTCAAAGAAGGACCGGGTGTAGCTGAAATGATGGAGATATTAGGCAAAGAAG
ATACACTTGAACGAATTATTCGATTAAAAAAGAAAAAGTAA
>g11138.t8 Gene=g11138 Length=431
MRDLEWAGMRADEGPLEYGGNFGPYIQSQRLDIYQKHIQTLLENGSAYHCFCSERRLELL
RKEALKARQIPKYDNRCRHLTPGQIAEKIAKGDKYCIRFKLHDTGESFIDLIYGNYVYYV
AQNEGDPVILKSDGYPTYHFANVVDDHLMEISHVLRGVEWQISTPKHLMMYRALGFTPPV
FGHLPLIMNADGSKLSKRQNDIKLEFYKTRGYFPQALLNYITQAGGGFNRDPSERLYCYD
MKHLTKKFDITRINSNSSRLNPELLNDLNRLELINQIENPEQCKVLIENVRTLIKTKYPL
NADQLDLDDDHILSVLKWASKRISTINELAEENLSFLWVLPKITKDKEIELNEAIIDSLV
EELKDENFNKQNLQQILKEFSNEKNLTFANFMKNLRTMLSGLKEGPGVAEMMEILGKEDT
LERIIRLKKKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g11138.t8 | Coils | Coil | Coil | 356 | 383 | - |
| 6 | g11138.t8 | Gene3D | G3DSA:3.40.50.620 | HUPs | 1 | 275 | 4.6E-95 |
| 7 | g11138.t8 | Gene3D | G3DSA:1.10.10.350 | - | 337 | 431 | 4.6E-18 |
| 2 | g11138.t8 | PANTHER | PTHR43311:SF2 | GLUTAMATE–TRNA LIGASE, MITOCHONDRIAL-RELATED | 2 | 426 | 2.0E-121 |
| 3 | g11138.t8 | PANTHER | PTHR43311 | GLUTAMATE–TRNA LIGASE | 2 | 426 | 2.0E-121 |
| 1 | g11138.t8 | Pfam | PF00749 | tRNA synthetases class I (E and Q), catalytic domain | 2 | 265 | 1.1E-61 |
| 5 | g11138.t8 | SUPERFAMILY | SSF52374 | Nucleotidylyl transferase | 2 | 255 | 6.82E-71 |
| 4 | g11138.t8 | SUPERFAMILY | SSF48163 | An anticodon-binding domain of class I aminoacyl-tRNA synthetases | 241 | 424 | 1.7E-21 |
| 9 | g11138.t8 | TIGRFAM | TIGR00464 | gltX_bact: glutamate–tRNA ligase | 3 | 425 | 4.8E-96 |
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:0000166 | nucleotide binding | MF |
| GO:0043039 | tRNA aminoacylation | BP |
| GO:0006424 | glutamyl-tRNA aminoacylation | BP |
| GO:0004812 | aminoacyl-tRNA ligase activity | MF |
| GO:0000049 | tRNA binding | MF |
| GO:0004818 | glutamate-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.
