General information for g9942.t11
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 4-aminobutyrate aminotransferase, mitochondrial.
Parent gene
- The parent gene g9942 is located on chr_1: 6124353..6126013 (- 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 | g9942 | g9942.t11 | TTS | g9942.t11 | 6123024 | 6123024 |
| chr_1 | g9942 | g9942.t11 | isoform | g9942.t11 | 6123325 | 6125593 |
| chr_1 | g9942 | g9942.t11 | exon | g9942.t11.exon1 | 6123325 | 6123417 |
| chr_1 | g9942 | g9942.t11 | cds | g9942.t11.CDS1 | 6123325 | 6123417 |
| chr_1 | g9942 | g9942.t11 | exon | g9942.t11.exon2 | 6123480 | 6123744 |
| chr_1 | g9942 | g9942.t11 | cds | g9942.t11.CDS2 | 6123480 | 6123744 |
| chr_1 | g9942 | g9942.t11 | exon | g9942.t11.exon3 | 6123804 | 6124278 |
| chr_1 | g9942 | g9942.t11 | cds | g9942.t11.CDS3 | 6123804 | 6124278 |
| chr_1 | g9942 | g9942.t11 | exon | g9942.t11.exon4 | 6124354 | 6124690 |
| chr_1 | g9942 | g9942.t11 | cds | g9942.t11.CDS4 | 6124354 | 6124582 |
| chr_1 | g9942 | g9942.t11 | exon | g9942.t11.exon5 | 6124783 | 6124890 |
| chr_1 | g9942 | g9942.t11 | exon | g9942.t11.exon6 | 6125366 | 6125487 |
| chr_1 | g9942 | g9942.t11 | exon | g9942.t11.exon7 | 6125557 | 6125593 |
| chr_1 | g9942 | g9942.t11 | TSS | g9942.t11 | 6125686 | 6125686 |
Sequences
>g9942.t11 Gene=g9942 Length=1437
ATGCTTCGTAGTGTCATACGAAATCCCAAGGCGTTTGCTTCTGAAGCGAGATGTCTTTAT
AGCACATATGTAAAAAATGAACCATCAGCACCAAAAGTTTGCACCGAGATCCCTGGACCA
AAGTCAAAAAGTCTGCTCAAAAATTTAAATCAACTTCAACAAGCTGGCTCAGTTCAATTA
TTTGCTGACTACGATGCGAGCATTGGAAATTATTTGATTGATGTTGATGGAAATCAGTTA
TTGGGTAAATTAATTTGATTTACTATTTTGCTAAAAGTTTTTGAAAATGAGCATAATATA
AAAACATTAGTGAATAGGCCTGCATTAGGCGTTTTCCCAGGCGCTGATTGGCCTGATAAA
CTGCAAAATGTTCTTATGTCAGTTGCACCAAAAGGACTAAAAAACATAACTACAATGATG
TGTGGATCATGCAGCAATGAAAATGCATTTAAGAACATGTTCTTGTGGTATTGTAAAAAT
CGTCGTGGTGAAAATGTTGATTTCACTGATGCTGAAAAGGAAACTTGTATGATCAATCAA
CAACCAGGTTCACCAAACCTTTCGATTTTATCTTTTATGGGCAGCTTTCATGGACGTACA
ATAGGAGCATTATCGACTACTCACTCAAAGTATATTCACAAAATTGATGTACCGGCTCTT
GATTGGCCAATTGCACCATTTCCTCGTTATAAATATCCATTAGAGGAAAATGTTCGTGAG
AATAAAGCTGAAGACGAACGTTGCTTGGCAGAAGTTGAGTCGTTGATTGAAAAGTGGAAT
AAGAAAGGACAGGATGTTGCTGGCATTATTGTGGAACCAATTCAGGCTGAAGGAGGCGAT
AATGAAGGCTCGCCAGAGTTCTTCCAGGGATTGCAAAAAATTACAAAACGAAATGGTGTT
GCATTGCTCATTGATGAGGTTCAAACCGGAGGTGGACCAACAGGGAAATTCTGGTGTCAT
GAATGGTTCAATTTAGAATCTTCACCAGACATTGTAACATTCTCGAAGAAAATGCAACTC
GGTGGTTATTATCATTCTGAAGATTTTAAGCCTCAACAAGAATATCGCATCTTTAATACA
TGGTGTGGAGATCCTGGAAAATTGTTAATTCTTGAGAAAGTTTTGGAAGTTATAAAACGC
GAGAATCTTCTTGATAACGTTAATAAAACTGGTGCTGTTTTAAAACAAGGACTTTTGGAT
GCACAAAAAGAATTTCCATCAATATTGAACTCAGCACGAGGTCGTGGAACATTCTTAGCT
ATAAATGCAAAAGATGGAAAGATCCGTGATACAATTGTTGGAAATTTAAAGAAGAAAGGC
ATTCAATCTGGAGGATGTGGAGAAGTATCAATTCGGTTCCGACCAGCATTGATTTTTGAA
CCAAAACATGCAAATATTTTCTTAGATAAATTTCGTCAAGTATTAAAGGAGCTTTAA
>g9942.t11 Gene=g9942 Length=353
MSVAPKGLKNITTMMCGSCSNENAFKNMFLWYCKNRRGENVDFTDAEKETCMINQQPGSP
NLSILSFMGSFHGRTIGALSTTHSKYIHKIDVPALDWPIAPFPRYKYPLEENVRENKAED
ERCLAEVESLIEKWNKKGQDVAGIIVEPIQAEGGDNEGSPEFFQGLQKITKRNGVALLID
EVQTGGGPTGKFWCHEWFNLESSPDIVTFSKKMQLGGYYHSEDFKPQQEYRIFNTWCGDP
GKLLILEKVLEVIKRENLLDNVNKTGAVLKQGLLDAQKEFPSILNSARGRGTFLAINAKD
GKIRDTIVGNLKKKGIQSGGCGEVSIRFRPALIFEPKHANIFLDKFRQVLKEL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g9942.t11 | CDD | cd00610 | OAT_like | 2 | 350 | 0 |
| 6 | g9942.t11 | Gene3D | G3DSA:3.40.640.10 | - | 3 | 258 | 0 |
| 5 | g9942.t11 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 259 | 346 | 0 |
| 2 | g9942.t11 | PANTHER | PTHR43206 | AMINOTRANSFERASE | 1 | 353 | 0 |
| 3 | g9942.t11 | PANTHER | PTHR43206:SF1 | 4-AMINOBUTYRATE AMINOTRANSFERASE, MITOCHONDRIAL | 1 | 353 | 0 |
| 7 | g9942.t11 | PIRSF | PIRSF000521 | Transaminase_4ab_Lys_Orn | 1 | 353 | 0 |
| 1 | g9942.t11 | Pfam | PF00202 | Aminotransferase class-III | 3 | 350 | 0 |
| 4 | g9942.t11 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 3 | 353 | 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:0008483 | transaminase activity | MF |
| GO:0003824 | catalytic activity | MF |
| GO:0030170 | pyridoxal phosphate binding | 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.
