General information for g10124.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as D-aspartate oxidase.
Parent gene
- The parent gene g10124 is located on chr_1: 7635254..7635806 (- 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 | g10124 | g10124.t1 | TTS | g10124.t1 | 7634570 | 7634570 |
| chr_1 | g10124 | g10124.t1 | isoform | g10124.t1 | 7634680 | 7635806 |
| chr_1 | g10124 | g10124.t1 | exon | g10124.t1.exon1 | 7634680 | 7635375 |
| chr_1 | g10124 | g10124.t1 | cds | g10124.t1.CDS1 | 7634680 | 7635375 |
| chr_1 | g10124 | g10124.t1 | exon | g10124.t1.exon2 | 7635440 | 7635605 |
| chr_1 | g10124 | g10124.t1 | cds | g10124.t1.CDS2 | 7635440 | 7635605 |
| chr_1 | g10124 | g10124.t1 | exon | g10124.t1.exon3 | 7635661 | 7635806 |
| chr_1 | g10124 | g10124.t1 | cds | g10124.t1.CDS3 | 7635661 | 7635806 |
| chr_1 | g10124 | g10124.t1 | TSS | g10124.t1 | 7635846 | 7635846 |
Sequences
>g10124.t1 Gene=g10124 Length=1008
ATGAAGATAGGAATTGTAGGCTCTGGCGTTATTGGATTAACAACTGCATTAGAATTGCAT
AAAGAATATCGAAATGCTTCAATAACGATCATTGCAGATAAGTTTGATAAAGAGACAGTG
AGTTATGTTGCTGCTGGCATTTTTCGACCAGGAACTGCATTTAGTGGACCAACTGAAGAA
ATCACTAAAAAATGGATAGTTGATGCATATGACCACTGGAACGAAATTAGAAAGACATCG
GAAGCAAGTAAAGCAGGTATCACTGAAATATCTGGTTATATTTTCTCTTCAATATCGGAA
TCAATCACTCGAAACCCATTAATTGAAGATGTTTTACCAGTTTATCGTCGTGCGACTGAA
GAAGAGCTAAAAATTTGTCCTGGCAGCTGGAAATACGGTAGCTTCTTTACAACACTCGTT
ACTGAATGTGCACTCTATTTACCTTGGGCTTCTAAAAAATTTGAATCAAACGGAGGAAAA
GTTTTTCACAAAAAAGTCAACAGTTTTAGTGATTTATATGGCGATTATGACATAATTATC
AACTGTACTGGAATGAATGCAAAACAATTGTGTAATGATCGAAAACTTGTTCCGATTCGT
GGTCAAATTTTAAAAGTTGATGCTCCTTGGCTTAAAATGGCATATTATGGAGATTATGAT
ACATATATAGTACCAGGTTTTAGCAGTGTTACTTTGGGTGGTTGCAGAAATTTTGAAAGT
TATGATATGAATCCGAGTCCTCATGATACTGCTGCAATTAAAGAACGCTGCGAATCTTTG
GTTCCAGGTTTGAAAACAGCAAAACTGAAGGAAATTCGTGTTGGCTTGCGTCCGCATCGC
GACCCATGTCGTGTTGAGACAGAATTTATTGATATACCTAATAAAGGTGTGTTGAGAATT
GTGCATCAATATGGTCACGGCGGATACGGAGTTACTACAGCTCCGGGAACTGCTAAGTAT
GCTACAAAGCTTGTTAAAGATGTATGGACTGGATATAGTCGTCTGTAA
>g10124.t1 Gene=g10124 Length=335
MKIGIVGSGVIGLTTALELHKEYRNASITIIADKFDKETVSYVAAGIFRPGTAFSGPTEE
ITKKWIVDAYDHWNEIRKTSEASKAGITEISGYIFSSISESITRNPLIEDVLPVYRRATE
EELKICPGSWKYGSFFTTLVTECALYLPWASKKFESNGGKVFHKKVNSFSDLYGDYDIII
NCTGMNAKQLCNDRKLVPIRGQILKVDAPWLKMAYYGDYDTYIVPGFSSVTLGGCRNFES
YDMNPSPHDTAAIKERCESLVPGLKTAKLKEIRVGLRPHRDPCRVETEFIDIPNKGVLRI
VHQYGHGGYGVTTAPGTAKYATKLVKDVWTGYSRL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g10124.t1 | Gene3D | G3DSA:3.40.50.720 | - | 3 | 324 | 0 |
| 7 | g10124.t1 | Gene3D | G3DSA:3.30.9.10 | - | 87 | 279 | 0 |
| 2 | g10124.t1 | PANTHER | PTHR11530 | D-AMINO ACID OXIDASE | 2 | 335 | 0 |
| 3 | g10124.t1 | PANTHER | PTHR11530:SF17 | RE49860P | 2 | 335 | 0 |
| 8 | g10124.t1 | PIRSF | PIRSF000189 | D-aa_oxidase | 1 | 334 | 0 |
| 1 | g10124.t1 | Pfam | PF01266 | FAD dependent oxidoreductase | 3 | 323 | 0 |
| 4 | g10124.t1 | SUPERFAMILY | SSF51971 | Nucleotide-binding domain | 1 | 330 | 0 |
| 5 | g10124.t1 | SUPERFAMILY | SSF54373 | FAD-linked reductases, C-terminal domain | 196 | 280 | 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:0046416 | D-amino acid metabolic process | BP |
| GO:0003884 | D-amino-acid oxidase activity | MF |
| GO:0055114 | NA | NA |
| GO:0071949 | FAD binding | MF |
| GO:0016491 | oxidoreductase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K00272 (D-aspartate oxidase)
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.
