Gene loci information

Transcript annotation

  • This transcript has been annotated as Glutamyl-tRNA(Gln) amidotransferase subunit B, 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 g9787 g9787.t1 TSS g9787.t1 5204572 5204572
chr_1 g9787 g9787.t1 isoform g9787.t1 5204630 5206241
chr_1 g9787 g9787.t1 exon g9787.t1.exon1 5204630 5205709
chr_1 g9787 g9787.t1 cds g9787.t1.CDS1 5204630 5205709
chr_1 g9787 g9787.t1 exon g9787.t1.exon2 5205762 5206241
chr_1 g9787 g9787.t1 cds g9787.t1.CDS2 5205762 5206241
chr_1 g9787 g9787.t1 TTS g9787.t1 5206307 5206307

Sequences

>g9787.t1 Gene=g9787 Length=1560
ATGAATAGAATTTATAAGATTAACATAATTACCATTTTAAATAGACAATTTTCAACAAAA
TTAGCACCAAAATCAAATACATGGAAAAGTGTAATAGGTTTAGAAATTCATGCACAAATC
GCATCAGAATCGAAACTTTTTAGCGGATCAAGAAATAGTTTTTCGGCTGAAATAAATAGC
TCAGTGTCATTACTTGATGCGGCAATTCCAGGTTGCTTACCAGTGCTTAATAGAAGATGT
GTAGAAGCAGGAATTAAAACGGCATTAGCTTTGAATTGTGAAATAAATGAAGTCAGTATG
TTCGATCGCAAACATTATTTTTATTCAGATTTGCCGGCTGGTTATCAAATAACTCAACAA
AGAAAACCGCTTGCTAGAAAAGGTTTCCTAACTTTTCCTGTATTAACTCCAGTCAAACAA
TCAAAAGCTTATTACAAAACTGTTCGTTTACATCAATTACAACTTGAACAAGATAGTGGA
AAATCGCTTCACGATGAAGAGTTAAAAATTAGTTTGATTGATTTAAATAGAGCTGGAATC
CCATTAATGGAGTTAGTATTTGAGCCTGATTTAAGTGATGGTGAAGAAGCTGCTGCATTA
GTAAAAGAACTCATTTTAATATTTGAGAGAATTCAAACATGCAACTGTCGAATGGAAGAA
GGACAATTGCGAGTTGATGCGAATGTGTCAATTAATAAAGAGGGTGAAGAGCTTGGTGTA
AGGACTGAAATAAAGAATATTGGATCAATAAGAGGTGTTGCACAAGCAATAGAATATGAA
ATTCAACGACAGATATCAGTGAAAGATCAAGGAGGAGTTATAATCAATGAGACAAGACAA
TGGAATGCAGTATCTAAAACAACTATAGCGATGAGAGATAAAGAAGTTGTTCAAGATTAT
AGATACATGCCTGAACCCAATTTACTGCCATTGCATTTAAACATGACTGAAGACGTTAAT
TTAGATGATTTAGTAAGTGTGAAAGCTATAGAAAAAAGTCTTCCGATTTTGCCACAAGAA
CTTCGTGATGAACTTGTCAATGATCATAAATTGACACAAGTTACTGCAATGATTTTAGTT
AATGACACAGTGATTTATAATTTGTATAAAGACATCATCAAGGAAAATCCAAAGAGATCA
GCTAAAACTGTTTCTAATGTACTCATCAATGATTATATAGCAACATGCAATAAGAATAAA
ATTTATCTTGAAGACAGTAAAATTTCTTCAAGTCATCTTGGAGAGATTATAGATATGCTT
GAAAATCAAGAGTTGAATCATAATTTAGTTAAATTAGTTTTACAAAAATTATTCGAAACT
TCACAATCACCTAAAGTGATTGTAGAAGAAAATCAATGGAAGCAAATATCAGACGATGCT
GAAATAATTAAATATTGTAATCAAGTTTTAGAAAGTGAAAATGGGAAGAAAATGGTTCAA
CAATATAAATCTGGTAAAACTAAGGTTTTATTTGCAATAGCAGGCGAAATTAATAAAATA
TCTAACAATAGAATAAACATGGCGAAAGTTACAGATATGTTAAAGAACATTTTAAAATAG

>g9787.t1 Gene=g9787 Length=519
MNRIYKINIITILNRQFSTKLAPKSNTWKSVIGLEIHAQIASESKLFSGSRNSFSAEINS
SVSLLDAAIPGCLPVLNRRCVEAGIKTALALNCEINEVSMFDRKHYFYSDLPAGYQITQQ
RKPLARKGFLTFPVLTPVKQSKAYYKTVRLHQLQLEQDSGKSLHDEELKISLIDLNRAGI
PLMELVFEPDLSDGEEAAALVKELILIFERIQTCNCRMEEGQLRVDANVSINKEGEELGV
RTEIKNIGSIRGVAQAIEYEIQRQISVKDQGGVIINETRQWNAVSKTTIAMRDKEVVQDY
RYMPEPNLLPLHLNMTEDVNLDDLVSVKAIEKSLPILPQELRDELVNDHKLTQVTAMILV
NDTVIYNLYKDIIKENPKRSAKTVSNVLINDYIATCNKNKIYLEDSKISSSHLGEIIDML
ENQELNHNLVKLVLQKLFETSQSPKVIVEENQWKQISDDAEIIKYCNQVLESENGKKMVQ
QYKSGKTKVLFAIAGEINKISNNRINMAKVTDMLKNILK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g9787.t1 Gene3D G3DSA:1.10.150.380 - 337 455 0.0000000
9 g9787.t1 Gene3D G3DSA:1.10.10.410 - 456 519 0.0000001
5 g9787.t1 Hamap MF_00121 Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B [gatB]. 27 519 28.3219550
3 g9787.t1 PANTHER PTHR11659 GLUTAMYL-TRNA GLN AMIDOTRANSFERASE SUBUNIT B MITOCHONDRIAL AND PROKARYOTIC PET112-RELATED 15 518 0.0000000
4 g9787.t1 PANTHER PTHR11659:SF0 GLUTAMYL-TRNA(GLN) AMIDOTRANSFERASE SUBUNIT B, MITOCHONDRIAL 15 518 0.0000000
1 g9787.t1 Pfam PF02934 GatB/GatE catalytic domain 31 314 0.0000000
2 g9787.t1 Pfam PF02637 GatB domain 369 518 0.0000000
8 g9787.t1 SMART SM00845 gatb_yqey_2 367 518 0.0000000
7 g9787.t1 SUPERFAMILY SSF55931 Glutamine synthetase/guanido kinase 30 314 0.0000000
6 g9787.t1 SUPERFAMILY SSF89095 GatB/YqeY motif 337 444 0.0000000
11 g9787.t1 TIGRFAM TIGR00133 gatB: aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, B subunit 28 518 0.0000000

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

Pathway

  • This transcript belongs to the following pathways

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.

Raw TPM values