General information for g9787.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Glutamyl-tRNA(Gln) amidotransferase subunit B, mitochondrial.
Parent gene
- The parent gene g9787 is located on chr_1: 5204630..5209622 (+ 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 | g9787 | g9787.t2 | TSS | g9787.t2 | 5204572 | 5204572 |
| chr_1 | g9787 | g9787.t2 | isoform | g9787.t2 | 5204630 | 5209622 |
| chr_1 | g9787 | g9787.t2 | exon | g9787.t2.exon1 | 5204630 | 5205713 |
| chr_1 | g9787 | g9787.t2 | cds | g9787.t2.CDS1 | 5204630 | 5205713 |
| chr_1 | g9787 | g9787.t2 | exon | g9787.t2.exon2 | 5205762 | 5206263 |
| chr_1 | g9787 | g9787.t2 | cds | g9787.t2.CDS2 | 5205762 | 5205766 |
| chr_1 | g9787 | g9787.t2 | exon | g9787.t2.exon3 | 5209599 | 5209622 |
| chr_1 | g9787 | g9787.t2 | TTS | g9787.t2 | NA | NA |
Sequences
>g9787.t2 Gene=g9787 Length=1610
ATGAATAGAATTTATAAGATTAACATAATTACCATTTTAAATAGACAATTTTCAACAAAA
TTAGCACCAAAATCAAATACATGGAAAAGTGTAATAGGTTTAGAAATTCATGCACAAATC
GCATCAGAATCGAAACTTTTTAGCGGATCAAGAAATAGTTTTTCGGCTGAAATAAATAGC
TCAGTGTCATTACTTGATGCGGCAATTCCAGGTTGCTTACCAGTGCTTAATAGAAGATGT
GTAGAAGCAGGAATTAAAACGGCATTAGCTTTGAATTGTGAAATAAATGAAGTCAGTATG
TTCGATCGCAAACATTATTTTTATTCAGATTTGCCGGCTGGTTATCAAATAACTCAACAA
AGAAAACCGCTTGCTAGAAAAGGTTTCCTAACTTTTCCTGTATTAACTCCAGTCAAACAA
TCAAAAGCTTATTACAAAACTGTTCGTTTACATCAATTACAACTTGAACAAGATAGTGGA
AAATCGCTTCACGATGAAGAGTTAAAAATTAGTTTGATTGATTTAAATAGAGCTGGAATC
CCATTAATGGAGTTAGTATTTGAGCCTGATTTAAGTGATGGTGAAGAAGCTGCTGCATTA
GTAAAAGAACTCATTTTAATATTTGAGAGAATTCAAACATGCAACTGTCGAATGGAAGAA
GGACAATTGCGAGTTGATGCGAATGTGTCAATTAATAAAGAGGGTGAAGAGCTTGGTGTA
AGGACTGAAATAAAGAATATTGGATCAATAAGAGGTGTTGCACAAGCAATAGAATATGAA
ATTCAACGACAGATATCAGTGAAAGATCAAGGAGGAGTTATAATCAATGAGACAAGACAA
TGGAATGCAGTATCTAAAACAACTATAGCGATGAGAGATAAAGAAGTTGTTCAAGATTAT
AGATACATGCCTGAACCCAATTTACTGCCATTGCATTTAAACATGACTGAAGACGTTAAT
TTAGATGATTTAGTAAGTGTGAAAGCTATAGAAAAAAGTCTTCCGATTTTGCCACAAGAA
CTTCGTGATGAACTTGTCAATGATCATAAATTGACACAAGTTACTGCAATGATTTTAGTT
GTAAAATGACACAGTGATTTATAATTTGTATAAAGACATCATCAAGGAAAATCCAAAGAG
ATCAGCTAAAACTGTTTCTAATGTACTCATCAATGATTATATAGCAACATGCAATAAGAA
TAAAATTTATCTTGAAGACAGTAAAATTTCTTCAAGTCATCTTGGAGAGATTATAGATAT
GCTTGAAAATCAAGAGTTGAATCATAATTTAGTTAAATTAGTTTTACAAAAATTATTCGA
AACTTCACAATCACCTAAAGTGATTGTAGAAGAAAATCAATGGAAGCAAATATCAGACGA
TGCTGAAATAATTAAATATTGTAATCAAGTTTTAGAAAGTGAAAATGGGAAGAAAATGGT
TCAACAATATAAATCTGGTAAAACTAAGGTTTTATTTGCAATAGCAGGCGAAATTAATAA
AATATCTAACAATAGAATAAACATGGCGAAAGTTACAGATATGTTAAAGAACATTTTAAA
ATAGGTTTATAAAAAGTTTACTTTAAATTTTTTGAAAAATTCAAAAAAAT
>g9787.t2 Gene=g9787 Length=362
MNRIYKINIITILNRQFSTKLAPKSNTWKSVIGLEIHAQIASESKLFSGSRNSFSAEINS
SVSLLDAAIPGCLPVLNRRCVEAGIKTALALNCEINEVSMFDRKHYFYSDLPAGYQITQQ
RKPLARKGFLTFPVLTPVKQSKAYYKTVRLHQLQLEQDSGKSLHDEELKISLIDLNRAGI
PLMELVFEPDLSDGEEAAALVKELILIFERIQTCNCRMEEGQLRVDANVSINKEGEELGV
RTEIKNIGSIRGVAQAIEYEIQRQISVKDQGGVIINETRQWNAVSKTTIAMRDKEVVQDY
RYMPEPNLLPLHLNMTEDVNLDDLVSVKAIEKSLPILPQELRDELVNDHKLTQVTAMILV
VK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g9787.t2 | PANTHER | PTHR11659 | GLUTAMYL-TRNA GLN AMIDOTRANSFERASE SUBUNIT B MITOCHONDRIAL AND PROKARYOTIC PET112-RELATED | 15 | 360 | 0 |
| 3 | g9787.t2 | PANTHER | PTHR11659:SF0 | GLUTAMYL-TRNA(GLN) AMIDOTRANSFERASE SUBUNIT B, MITOCHONDRIAL | 15 | 360 | 0 |
| 1 | g9787.t2 | Pfam | PF02934 | GatB/GatE catalytic domain | 31 | 314 | 0 |
| 4 | g9787.t2 | SUPERFAMILY | SSF55931 | Glutamine synthetase/guanido kinase | 30 | 314 | 0 |
| 5 | g9787.t2 | TIGRFAM | TIGR00133 | gatB: aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, B subunit | 28 | 360 | 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:0016884 | carbon-nitrogen ligase activity, with glutamine as amido-N-donor | MF |
| GO:0003824 | catalytic activity | MF |
| GO:0016874 | 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.
