General information for g9942.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 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.t4 | TTS | g9942.t4 | 6123024 | 6123024 |
| chr_1 | g9942 | g9942.t4 | isoform | g9942.t4 | 6123046 | 6124277 |
| chr_1 | g9942 | g9942.t4 | exon | g9942.t4.exon1 | 6123046 | 6123417 |
| chr_1 | g9942 | g9942.t4 | cds | g9942.t4.CDS1 | 6123325 | 6123417 |
| chr_1 | g9942 | g9942.t4 | exon | g9942.t4.exon2 | 6123480 | 6123744 |
| chr_1 | g9942 | g9942.t4 | cds | g9942.t4.CDS2 | 6123480 | 6123744 |
| chr_1 | g9942 | g9942.t4 | exon | g9942.t4.exon3 | 6123804 | 6124277 |
| chr_1 | g9942 | g9942.t4 | cds | g9942.t4.CDS3 | 6123804 | 6123871 |
| chr_1 | g9942 | g9942.t4 | TSS | g9942.t4 | NA | NA |
Sequences
>g9942.t4 Gene=g9942 Length=1111
AGCATTATCGACTACTCACTCAAAGTATATTCACAAAATTGATGTACCGGCTCTTGATTG
GCCAATTGCACCATTTCCTCGTTATAAATATCCATTAGAGGAAAATGTTCGTGAGAATAA
AGCTGAAGACGAACGTTGCTTGGCAGAAGTTGAGTCGTTGATTGAAAAGTGGAATAAGAA
AGGACAGGATGTTGCTGGCATTATTGTGGAACCAATTCAGGCTGAAGGAGGCGATAATGA
AGGCTCGCCAGAGTTCTTCCAGGGATTGCAAAAAATTACAAAACGAAATGGTGTTGCATT
GCTCATTGATGAGGTTCAAACCGGAGGTGGACCAACAGGGAAATTCTGGTGTCATGAATG
GTTCAATTTAGAATCTTCACCAGACATTGTAACATTCTCGAAGAAAATGCAACTCGGTGG
TTATTATCATTCTGAAGATTTTAAGCCTCAACAAGAATATCGCATCTTTAATACATGGTG
TGGAGATCCTGGAAAATTGTTAATTCTTGAGAAAGTTTTGGAAGTTATAAAACGCGAGAA
TCTTCTTGATAACGTTAATAAAACTGGTGCTGTTTTAAAACAAGGACTTTTGGATGCACA
AAAAGAATTTCCATCAATATTGAACTCAGCACGAGGTCGTGGAACATTCTTAGCTATAAA
TGCAAAAGATGGAAAGATCCGTGATACAATTGTTGGAAATTTAAAGAAGAAAGGCATTCA
ATCTGGAGGATGTGGAGAAGTATCAATTCGGTTCCGACCAGCATTGATTTTTGAACCAAA
ACATGCAAATATTTTCTTAGATAAATTTCGTCAAGTATTAAAGGAGCTTTAAAAAGTTTA
TCAAAAATATACGAAAAGAAACAAATGTATTTATTTAGCATTTGGAAGAAAGAAAAGTCC
CATTTCAACTGCCCCTTACTCCAACTCAAATGAATGCTTTTATAAAATAAATTCCCTACT
AAAATTTTTGTGTATGTCTCAGCAAAATAGTTACAAAATGTGTATTATGCAGTCTTCCAT
AGATTAATGTCTTTATGTGTTTCGATGTTTGCAAAAAATAAAGTTATTGGCAATAAAAAG
TCATCTAATGGAAAAAGACAAAACAACAAAA
>g9942.t4 Gene=g9942 Length=141
MQLGGYYHSEDFKPQQEYRIFNTWCGDPGKLLILEKVLEVIKRENLLDNVNKTGAVLKQG
LLDAQKEFPSILNSARGRGTFLAINAKDGKIRDTIVGNLKKKGIQSGGCGEVSIRFRPAL
IFEPKHANIFLDKFRQVLKEL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g9942.t4 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 1 | 140 | 0 |
| 2 | g9942.t4 | PANTHER | PTHR43206 | AMINOTRANSFERASE | 1 | 141 | 0 |
| 3 | g9942.t4 | PANTHER | PTHR43206:SF1 | 4-AMINOBUTYRATE AMINOTRANSFERASE, MITOCHONDRIAL | 1 | 141 | 0 |
| 1 | g9942.t4 | Pfam | PF00202 | Aminotransferase class-III | 4 | 138 | 0 |
| 4 | g9942.t4 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 9 | 141 | 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.
