General information for g9242.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alanine–glyoxylate aminotransferase 2, mitochondrial.
Parent gene
- The parent gene g9242 is located on chr_1: 1055931..1058606 (- 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 | g9242 | g9242.t1 | isoform | g9242.t1 | 1055931 | 1058606 |
| chr_1 | g9242 | g9242.t1 | exon | g9242.t1.exon1 | 1055931 | 1056071 |
| chr_1 | g9242 | g9242.t1 | cds | g9242.t1.CDS1 | 1055931 | 1056071 |
| chr_1 | g9242 | g9242.t1 | exon | g9242.t1.exon2 | 1056247 | 1056812 |
| chr_1 | g9242 | g9242.t1 | cds | g9242.t1.CDS2 | 1056247 | 1056812 |
| chr_1 | g9242 | g9242.t1 | exon | g9242.t1.exon3 | 1057262 | 1057524 |
| chr_1 | g9242 | g9242.t1 | cds | g9242.t1.CDS3 | 1057262 | 1057524 |
| chr_1 | g9242 | g9242.t1 | exon | g9242.t1.exon4 | 1057584 | 1057848 |
| chr_1 | g9242 | g9242.t1 | cds | g9242.t1.CDS4 | 1057584 | 1057848 |
| chr_1 | g9242 | g9242.t1 | exon | g9242.t1.exon5 | 1058570 | 1058606 |
| chr_1 | g9242 | g9242.t1 | cds | g9242.t1.CDS5 | 1058570 | 1058606 |
| chr_1 | g9242 | g9242.t1 | TSS | g9242.t1 | 1058635 | 1058635 |
| chr_1 | g9242 | g9242.t1 | TTS | g9242.t1 | NA | NA |
Sequences
>g9242.t1 Gene=g9242 Length=1272
ATGTTGAGGTTGAATCTGTTGAAAGATGGAATAAGCGCTGCTGCCATTGTTAAAGTAAAT
GAAAAGGCTATTTCAACATTGCTACAAAAATGTTCATTTACAAGCACAACATATAATGGA
CCAAGCTATGAAAAAATTCTCGAATTGAGAAAACAATTTGTTACACCATCAGCCATTCCA
TTTTATCGAAAGCCGCTACTCATACACAAGGGTGAAATGCAGTTTTTATATGATCATAAA
GGTGTCAAATATCTCGATATGTTTGCTGGAATTGTGACTGTTTCCGTTGGTCATTGTCAT
CCGAAAGTCAATGCTGCATTGGAAGAGCAAATAAAAACATTGTGGCACACAACTTGTATT
TACATGCATCCAAAAGTCTTTGAGTATTCCGAGAAATTGGCATCAAAACTACCTGGTGAT
TTGAAAGTTGTTTATCTCACCAATTCAGGATCAGAAGCAAACGACTTGGCTATCTTGATG
TCACGACTATTTACCAAAAATTATGATATTTTGACCTTCAAAAATGCCTATCATGGCGGC
TCAACGAGCACTATGGGATTAACAGCACAATCAACATGGCATTATCCAGTACCAGGTCTA
AAAAATGGTATTCATCATGTCATGAATCCCGATCCATATACCGGTATATGGGGAGGAAGC
AATTGTCGAGATTCGCCTGTTCAAACTAATCGCAAATGTGATTGCACACAAGGGAAATGT
CTTGCCGAAGATAATTACATTAATCAACTTGAAAGCGAGTTTAAATATTCATTGCCTAGA
GGTAAATTGGCTGCATTGTTTGCTGAGTCAATTCAGGGTGTCGGCGGCAGTGTGCAATTC
CCGAGAAATTATCTCAAACGAGCGGCTGAAATTGTTCGAGCTGGTGGCGGTCTCATTGTC
AGTGATGAAGTTCAAACAGGCTTTGGAAGAACAGGTGAAAATTATTGGGGTTTTGAGAAT
CATGGCATTGTGCCTGATATTGTGACAATGGCAAAAGGTATTGGAAATGGCTTTCCACTT
GGCGCTGTTGTTACCACACAGAAAATTGCACAAGTTATGACTGAGGCAGTTCATTTTAAT
ACATTCGGTGGAAATCCAATGGCTTGTGCGGTTGGAAAAGCCGTATTGGATGTGATTGAC
GAAGAGAAGCTACAACAGAATGCTTTGGATGTTGGAACATATTTACTCAAGGGATTTGAA
ATATTACGTGAAAAATATGACATTATTGGCGATGTAAGAGGCAAGGTAAGATTTAAAGTT
TTTCTTCTTTAA
>g9242.t1 Gene=g9242 Length=423
MLRLNLLKDGISAAAIVKVNEKAISTLLQKCSFTSTTYNGPSYEKILELRKQFVTPSAIP
FYRKPLLIHKGEMQFLYDHKGVKYLDMFAGIVTVSVGHCHPKVNAALEEQIKTLWHTTCI
YMHPKVFEYSEKLASKLPGDLKVVYLTNSGSEANDLAILMSRLFTKNYDILTFKNAYHGG
STSTMGLTAQSTWHYPVPGLKNGIHHVMNPDPYTGIWGGSNCRDSPVQTNRKCDCTQGKC
LAEDNYINQLESEFKYSLPRGKLAALFAESIQGVGGSVQFPRNYLKRAAEIVRAGGGLIV
SDEVQTGFGRTGENYWGFENHGIVPDIVTMAKGIGNGFPLGAVVTTQKIAQVMTEAVHFN
TFGGNPMACAVGKAVLDVIDEEKLQQNALDVGTYLLKGFEILREKYDIIGDVRGKVRFKV
FLL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g9242.t1 | CDD | cd00610 | OAT_like | 48 | 415 | 1.16029E-127 |
| 6 | g9242.t1 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 46 | 415 | 6.7E-112 |
| 7 | g9242.t1 | Gene3D | G3DSA:3.40.640.10 | - | 100 | 383 | 6.7E-112 |
| 2 | g9242.t1 | PANTHER | PTHR45688:SF3 | ALANINE–GLYOXYLATE AMINOTRANSFERASE 2, MITOCHONDRIAL | 17 | 415 | 1.6E-172 |
| 3 | g9242.t1 | PANTHER | PTHR45688 | - | 17 | 415 | 1.6E-172 |
| 9 | g9242.t1 | PIRSF | PIRSF000521 | Transaminase_4ab_Lys_Orn | 14 | 166 | 1.5E-6 |
| 8 | g9242.t1 | PIRSF | PIRSF000521 | Transaminase_4ab_Lys_Orn | 161 | 198 | 0.11 |
| 10 | g9242.t1 | PIRSF | PIRSF000521 | Transaminase_4ab_Lys_Orn | 225 | 421 | 5.9E-25 |
| 1 | g9242.t1 | Pfam | PF00202 | Aminotransferase class-III | 66 | 415 | 5.8E-78 |
| 5 | g9242.t1 | ProSitePatterns | PS00600 | Aminotransferases class-III pyridoxal-phosphate attachment site. | 299 | 337 | - |
| 4 | g9242.t1 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 57 | 415 | 6.51E-100 |
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 transcript has been annotated with K00827 (alanine-glyoxylate transaminase / (R)-3-amino-2-methylpropionate-pyruvate transaminase)
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.
