Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable glutamate–tRNA ligase, mitochondrial.

Parent gene

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.t7 TSS g11138.t7 14307782 14307782
chr_1 g11138 g11138.t7 isoform g11138.t7 14307844 14309496
chr_1 g11138 g11138.t7 exon g11138.t7.exon1 14307844 14307941
chr_1 g11138 g11138.t7 exon g11138.t7.exon2 14308006 14309199
chr_1 g11138 g11138.t7 cds g11138.t7.CDS1 14308140 14309199
chr_1 g11138 g11138.t7 exon g11138.t7.exon3 14309261 14309496
chr_1 g11138 g11138.t7 cds g11138.t7.CDS2 14309261 14309496
chr_1 g11138 g11138.t7 TTS g11138.t7 14309565 14309565

Sequences

>g11138.t7 Gene=g11138 Length=1528
CTATTTTAAAAGAATAATTAATGAAGACTTGTTTAAAATCAGCCGAAAATATAGTACTGA
TAAAGAAGTACGAGTGAGATTTGCTCCATCACCAACTGGATTTTTACATCTTGGTGGATT
AAGGACAGCATTGTTCAATTATCTTTTTGCAAAAGCTAATAATGGTAAATTCATTTTAAG
AATAGAGGATACTGATCAAACAAGACTTGTTGAGGGTGCAACAGAACAATTAATGAGAGA
TTTAGAATGGGCTGGTATGAGAGCAGATGAGGGGCCGCTTGAATACGGAGGAAATTTTGG
TCCATATATACAAAGTCAACGATTAGACATTTATCAAAAACACATTCAAACGCTACTTGA
AAATGGTAGCGCATATCATTGTTTTTGCAGTGAAAGAAGACTTGAATTATTGAGAAAAGA
AGCTTTAAAAGCACGCCAAATTCCTAAATATGACAACAGATGCAGACATCTCACTCCAGG
ACAAATTGCAGAAAAAATTGCAAAGGGTGACAAATATTGTATAAGATTTAAATTACATGA
TACTGGTGAATCATTTATTGATTTAATCTATGGAAATTATGTCTACTATGTCGCACAAAA
TGAGGGCGATCCTGTTATTCTTAAAAGTGATGGTTATCCTACTTATCATTTTGCAAATGT
CGTTGATGACCATTTAATGGAAATAAGTCATGTGTTGAGAGGAGTAGAATGGCAGATATC
TACACCAAAGCATTTAATGATGTATAGAGCATTAGGATTTACACCACCTGTTTTCGGACA
TTTGCCACTTATAATGAATGCAGATGGAAGCAAGTTAAGTAAGAGACAAAACGATATTAA
ACTTGAATTCTATAAAACGAGAGGATATTTTCCACAAGCTTTGCTCAATTATATTACACA
AGCTGGAGGAGGCTTTAATCGAGATCCAAGCGAACGATTATACTGTTATGATATGAAACA
TTTAACAAAAAAGTTTGACATTACACGAATCAATTCAAATTCTAGTCGACTAAATCCAGA
ACTGTTAAATGACCTAAATCGTCTCGAATTAATTAATCAAATTGAAAATCCTGAGCAATG
CAAAGTCCTAATTGAAAATGTTCGTACACTTATTAAAACAAAATATCCGTTAAATGCTGA
TCAATTGGACCTTGATGATGATCATATATTAAGTGTCTTAAAATGGGCATCAAAAAGAAT
TAGCACAATAAATGAACTAGCTGAAGAAAATCTTTCTTTTCTTTGGGTTCTTCCTAAAAT
TACAAAGGACAAAGAGATTGAATTGAATGAAGCAATAATCGATTCATTAGTTGAAGAATT
AAAAGACGAAAACTTTAATAAGCAAAATCTTCAACAAATACTCAAAGAGTTTTCAAACGA
GAAAAATCTGACGTTTGCCAACTTTATGAAAAATTTACGAACAATGTTGAGTGGCCTCAA
AGAAGGACCGGGTGTAGCTGAAATGATGGAGATATTAGGCAAAGAAGATACACTTGAACG
AATTATTCGATTAAAAAAGAAAAAGTAA

>g11138.t7 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.t7 Coils Coil Coil 356 383 -
6 g11138.t7 Gene3D G3DSA:3.40.50.620 HUPs 1 275 4.6E-95
7 g11138.t7 Gene3D G3DSA:1.10.10.350 - 337 431 4.6E-18
2 g11138.t7 PANTHER PTHR43311:SF2 GLUTAMATE–TRNA LIGASE, MITOCHONDRIAL-RELATED 2 426 2.0E-121
3 g11138.t7 PANTHER PTHR43311 GLUTAMATE–TRNA LIGASE 2 426 2.0E-121
1 g11138.t7 Pfam PF00749 tRNA synthetases class I (E and Q), catalytic domain 2 265 1.1E-61
5 g11138.t7 SUPERFAMILY SSF52374 Nucleotidylyl transferase 2 255 6.82E-71
4 g11138.t7 SUPERFAMILY SSF48163 An anticodon-binding domain of class I aminoacyl-tRNA synthetases 241 424 1.7E-21
9 g11138.t7 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. There were no conditions that were differentially expressed