General information for g13018.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative D-aspartate oxidase.
Parent gene
- The parent gene g13018 is located on chr_1: 27536624..27537757 (- 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 | g13018 | g13018.t4 | TTS | g13018.t4 | 27536464 | 27536464 |
| chr_1 | g13018 | g13018.t4 | isoform | g13018.t4 | 27536624 | 27537757 |
| chr_1 | g13018 | g13018.t4 | exon | g13018.t4.exon1 | 27536624 | 27536713 |
| chr_1 | g13018 | g13018.t4 | cds | g13018.t4.CDS1 | 27536626 | 27536713 |
| chr_1 | g13018 | g13018.t4 | exon | g13018.t4.exon2 | 27536782 | 27537504 |
| chr_1 | g13018 | g13018.t4 | cds | g13018.t4.CDS2 | 27536782 | 27537323 |
| chr_1 | g13018 | g13018.t4 | exon | g13018.t4.exon3 | 27537566 | 27537757 |
| chr_1 | g13018 | g13018.t4 | TSS | g13018.t4 | NA | NA |
Sequences
>g13018.t4 Gene=g13018 Length=1005
ATGAAGAAAATTTATATTGTCGGTGCAGGCATCTGTGGAATCTCAGCTGCTGTGCAAATT
GCAGAAAATTTCAAGAATCAAAATGTTGAAGTGATTGTTGTAGCTGAGAAATTTACACCA
AATACAACAAGTGATTTAGTTGCTGGCCTATGGGGTCCTTATCTAATGGGCAGCACTCCA
GAGCACAAAATTTCAATGGTCGAAAACGACACACGAATATTTTCATCATTTATGGTTGAA
TGGATTGGCAGAAGAAGCTGGCATAACGATGATTCCTTGCTATCGTTTGTCAGCTGAAGA
AGAAATACAAAATCCATGCTGGAAAAATATTGTTTTTGGCTTTCGTGAATTGACTTCTCA
AGAGATTTCTAAAATGAGTCGTGAACATCGTCGTAAATATTTGAGTGGAAGCAATTTTGT
CACATTTTGTTGCGAACCAATCAAATTTATACCTTTTATGACAAAGAGATTTATAAAAGC
AGGCGGAAAGTTAGAGACGAGAAAATTGCGTGACTTTGATGAATTGAAAGATGCTGACTT
GATTGTCAACTGCACGGGATTAGGCGGAAAAGAGCTTGGCGATGAACAGCTCCATCCAAT
TAGAGGACAAATTACACGAGTTAGTGCACCTTGGATGTATTTTGTTATGATTGACGATAG
CGATGATGGCAATTATATTATTCCAAATGCAGAATCAGTCGTGCTTGGTGGAACACATCA
GTACAATGACTTTAATACAAAATTTTCAACATCAGATAATGACTTTATCATGAATGGCTG
CCAGCGAATGGTCAAAAGTCTTGAAAATGCCGAAAGACTAAGAGACATTGTTGGCTTAAG
ACCTGGAAGGGATCAAGTGAGACTTGAAATTGTGCATGGCACGAATGGAAAAGCACCGGT
AATTCATAATGTAGGACATGGTGGATGCGGTGTGACATTATCCTGGGGTTGTGGACAAGA
AGTTTTAGAGAAAACTGTTGAAGTGATGAAAGGAATGTCAAAATT
>g13018.t4 Gene=g13018 Length=210
MSREHRRKYLSGSNFVTFCCEPIKFIPFMTKRFIKAGGKLETRKLRDFDELKDADLIVNC
TGLGGKELGDEQLHPIRGQITRVSAPWMYFVMIDDSDDGNYIIPNAESVVLGGTHQYNDF
NTKFSTSDNDFIMNGCQRMVKSLENAERLRDIVGLRPGRDQVRLEIVHGTNGKAPVIHNV
GHGGCGVTLSWGCGQEVLEKTVEVMKGMSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g13018.t4 | Gene3D | G3DSA:3.30.9.10 | - | 39 | 157 | 0 |
| 2 | g13018.t4 | PANTHER | PTHR11530 | D-AMINO ACID OXIDASE | 7 | 205 | 0 |
| 3 | g13018.t4 | PANTHER | PTHR11530:SF11 | D-ASPARTATE OXIDASE | 7 | 205 | 0 |
| 1 | g13018.t4 | Pfam | PF01266 | FAD dependent oxidoreductase | 19 | 197 | 0 |
| 4 | g13018.t4 | SUPERFAMILY | SSF51971 | Nucleotide-binding domain | 15 | 199 | 0 |
| 5 | g13018.t4 | SUPERFAMILY | SSF54373 | FAD-linked reductases, C-terminal domain | 73 | 159 | 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 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. There were no conditions that were differentially expressed