General information for g9648.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Glutamyl-tRNA(Gln) amidotransferase subunit A, mitochondrial.
Parent gene
- The parent gene g9648 is located on chr_1: 4468426..4470035 (+ 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 | g9648 | g9648.t1 | TSS | g9648.t1 | 4468363 | 4468363 |
| chr_1 | g9648 | g9648.t1 | isoform | g9648.t1 | 4468426 | 4470035 |
| chr_1 | g9648 | g9648.t1 | exon | g9648.t1.exon1 | 4468426 | 4468458 |
| chr_1 | g9648 | g9648.t1 | cds | g9648.t1.CDS1 | 4468426 | 4468458 |
| chr_1 | g9648 | g9648.t1 | exon | g9648.t1.exon2 | 4468514 | 4468761 |
| chr_1 | g9648 | g9648.t1 | cds | g9648.t1.CDS2 | 4468514 | 4468761 |
| chr_1 | g9648 | g9648.t1 | exon | g9648.t1.exon3 | 4468832 | 4470035 |
| chr_1 | g9648 | g9648.t1 | cds | g9648.t1.CDS3 | 4468832 | 4470035 |
| chr_1 | g9648 | g9648.t1 | TTS | g9648.t1 | 4470095 | 4470095 |
Sequences
>g9648.t1 Gene=g9648 Length=1485
ATGTCAAGAATATCTAATTTATCTATTAAACAGCTGTCAAGAAAATTTGATGAAAAACTT
TTGTGTCCTAAAGAACATACATTAGAAGTGTTTAAAAATATTAAAAGAAACAATAATGAT
ATTAATGCATTCATAACACTATCTGAGGAATTTGCATTAAAAAAGGCTGAAGAATCAGCT
AATCGAATTGCATTAGGAAAAAAATTGAAACTTGATGGCATTTTAGTAGCATGCAAAGAT
AATTTTTGTACAAAAGGAATAAGAACGACATGTGGTTCTATAATGCTGAAAAATTTTGTA
CCAACTTATAATGCCACAGTTTATGATAAGTTGGAAAAGGCAGGTGCTATACTAGTTGGA
AAAACAAATTTGGATCAATATGGAATGGGTTCAGGCACAGTTGACTCTATTTTTGGGCCT
ACGAAAAATGTATGGAGTGAAAATTTAAACAATCCTAGAATATGTGGAGGTTCTAGTGGT
GGTTCCGCTTCTGCTGTTGCTGCCAATTTTTGTTCTACTGCTCTTGGGTCAGATACTGGC
GGATCTACTCGCAATCCTGCATCATATTCTGGTGTGATTGGTTTTAAACCTACATATGGT
TTACTTTCAAGACATGGTTTGATTCCATTAGTCAATTCTATGGATGTTCCAGGAATTTTA
ACAAAAACCGTTGATGATTGTGTAGACATTTTTAATACGATTGCAGGACCAGATGATTTA
GATTCAACCACAATTAAAAAATCATTTAATCCAATTGAATTGTCTGAAAATTTTAATTTA
AAAAATGTTAAAATTGGTATACCTAAAGAATATAATTGCGAGGGTCTAACATCTGAAGTG
CTAGAAGCTTGGACAAAGATGGCAGATTTTCTTGAAGAGAATGGTGCAAGAGTAGAGGAA
ATATCTATGCCATACACTACAGCATCAATATTTGTTTATTCCATTTTAAATCAATGTGAA
GTAGCTAGTAATATGGCACGTTATGATGGAATTGAATATGGACATCGAGCAGATGACGAA
TCAAGTACAGAAAATTTATATTCAAAGACACGTGCTGAAGGTTTTAATGGAGTTGTTAAA
AATAGAATTCTTGCGGGTAACTATTTTTTGTTACGAAAAAATTATGAAAAATATTTTCTG
AAAGCACTCAAAGTTAGACGATTGGTTAGTGATGATTTCAAAAAAGCATTTTCAAAAATT
GATTTATTACTGACTCCCACAACACTCTCTGATGCACCTTTACTAAGCGATTTCACAAAA
AATAACAATCGAGATCAATGTGCTGTTCAAGACTTTTGCACTTGTCCTGCAAATATGGCT
GGTGTTCCAGCTTTATCGATTCCAATTAAATTATCTAGTAATAATCTTCCCATTAGTCTT
CAATTAATGGGTCCCAATTTTTCAGAGAAATTGATTTTCAACACAGCAAAATTTATAGAA
AATAGAGTAGATTTTTATTTAAATTATAATAAATTAAAATTATAG
>g9648.t1 Gene=g9648 Length=494
MSRISNLSIKQLSRKFDEKLLCPKEHTLEVFKNIKRNNNDINAFITLSEEFALKKAEESA
NRIALGKKLKLDGILVACKDNFCTKGIRTTCGSIMLKNFVPTYNATVYDKLEKAGAILVG
KTNLDQYGMGSGTVDSIFGPTKNVWSENLNNPRICGGSSGGSASAVAANFCSTALGSDTG
GSTRNPASYSGVIGFKPTYGLLSRHGLIPLVNSMDVPGILTKTVDDCVDIFNTIAGPDDL
DSTTIKKSFNPIELSENFNLKNVKIGIPKEYNCEGLTSEVLEAWTKMADFLEENGARVEE
ISMPYTTASIFVYSILNQCEVASNMARYDGIEYGHRADDESSTENLYSKTRAEGFNGVVK
NRILAGNYFLLRKNYEKYFLKALKVRRLVSDDFKKAFSKIDLLLTPTTLSDAPLLSDFTK
NNNRDQCAVQDFCTCPANMAGVPALSIPIKLSSNNLPISLQLMGPNFSEKLIFNTAKFIE
NRVDFYLNYNKLKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g9648.t1 | Gene3D | G3DSA:3.90.1300.10 | Amidase signature (AS) enzymes | 3 | 492 | 0.00000 |
| 4 | g9648.t1 | Hamap | MF_00120 | Glutamyl-tRNA(Gln) amidotransferase subunit A [gatA]. | 12 | 484 | 82.48882 |
| 2 | g9648.t1 | PANTHER | PTHR11895 | TRANSAMIDASE | 9 | 480 | 0.00000 |
| 3 | g9648.t1 | PANTHER | PTHR11895:SF7 | GLUTAMYL-TRNA(GLN) AMIDOTRANSFERASE SUBUNIT A, MITOCHONDRIAL | 9 | 480 | 0.00000 |
| 1 | g9648.t1 | Pfam | PF01425 | Amidase | 27 | 472 | 0.00000 |
| 5 | g9648.t1 | SUPERFAMILY | SSF75304 | Amidase signature (AS) enzymes | 3 | 482 | 0.00000 |
| 7 | g9648.t1 | TIGRFAM | TIGR00132 | gatA: aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, A subunit | 18 | 484 | 0.00000 |
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:0016787 | hydrolase activity | MF |
| GO:0050567 | glutaminyl-tRNA synthase (glutamine-hydrolyzing) activity | MF |
| GO:0006412 | translation | BP |
| GO:0030956 | glutamyl-tRNA(Gln) amidotransferase complex | CC |
KEGG
Orthology
- This transcript has been annotated with K02433 (aspartyl-tRNA(Asn)/glutamyl-tRNA(Gln) amidotransferase subunit A)
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.
