General information for g6786.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Indole-3-acetaldehyde oxidase.
Parent gene
- The parent gene g6786 is located on chr_2: 18604483..18606466 (+ 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_2 | g6786 | g6786.t4 | TSS | g6786.t4 | 18601649 | 18601649 |
| chr_2 | g6786 | g6786.t4 | isoform | g6786.t4 | 18601763 | 18603572 |
| chr_2 | g6786 | g6786.t4 | exon | g6786.t4.exon1 | 18601763 | 18601802 |
| chr_2 | g6786 | g6786.t4 | cds | g6786.t4.CDS1 | 18601763 | 18601802 |
| chr_2 | g6786 | g6786.t4 | exon | g6786.t4.exon2 | 18602279 | 18602451 |
| chr_2 | g6786 | g6786.t4 | cds | g6786.t4.CDS2 | 18602279 | 18602451 |
| chr_2 | g6786 | g6786.t4 | exon | g6786.t4.exon3 | 18602514 | 18603378 |
| chr_2 | g6786 | g6786.t4 | cds | g6786.t4.CDS3 | 18602514 | 18603378 |
| chr_2 | g6786 | g6786.t4 | exon | g6786.t4.exon4 | 18603432 | 18603572 |
| chr_2 | g6786 | g6786.t4 | cds | g6786.t4.CDS4 | 18603432 | 18603571 |
| chr_2 | g6786 | g6786.t4 | TTS | g6786.t4 | NA | NA |
Sequences
>g6786.t4 Gene=g6786 Length=1219
ATGGAAGTTTCATTTTCAATTAATGGAAAAATTCATAAGATAACGCCGGCAGCTGTTCCG
CTCGATACGTCATTGACTACGTACATTCGTGACTATGCAAACTTGAAGGGAACAAAATTT
ATGTGCTTGGAGGGAGGATGTGGTGCATGTATTGTGATGCTGAAAGGTGTTCATCCTGTT
ACAAAGCAAAATACTTCTTGGGCTGTTAATTCTTGTCTTCAAAATATCTATTCATGTCAT
GGTCTTGATATCATAACTGTTGAAGGAATTGGTAGCAAAAAGGATGGCATGCATAAAATT
CAAAAACGATTGGCTGATTTTAATGGAACTCAATGTGGATTTTGTACTCCTGGGATGGTC
ATGAATATGTTTTCATTGATGGAAGCGAAAAATGGAAAAGTGACAATGGAAGAAGTTGAG
AATTCGTTTGGTGGAAATATATGCAGATGCACTGGTTATCGACCAATTTTAGATGCATTC
AAATCACTTGCAATTGATGCTGATAAGAATCTTTTGGATGCATGCAAGGACATTGAAGAT
TTGAGTGATATTAAAATGTGTCCAAAATCAGGAAATCCTTGTTCTGGCAAATGCAGTTCA
TTGTTGAATATTGAAAAAAATCCAATGAGCTTCACTTTTGATGATGAACGCGAGTTTCAC
AAAGTTTATAATTTAGAACAACTTTTTAAGATAATGGGAACAATAAAATATCGTCCATAC
ATTTTGATTGGAGGCAACACTGCTCATGGTGTATATCGTCGATCAACAGATTTGAAAGTT
TTCGTTGATATTTCGAGTGTTGAAGAGTTGAAAACTTACAAAGTTACTGAGAATTCATTA
GAAGTTGGTGGAGCAGTAACTCTAACTGAAGCAATGGAGATTTTTACAAAAGTTGCAAAT
GAAAATAAGAACTTTCAATATTTGCATGAAATCGTCAAGCATTTTGATAAAATTGGTAAT
CCAGCTCTTAGAAATGTTGCAACTCTTGCTGGAAATTTAATGCTTAAATATAATTATCTT
CAATTTCCATCTGATATTTATATGATCATGGAAACTATTGGTGCAAAATTGTCACTATTA
TCTGCACCTGATGATAACCTTAACCCTTTGAACCCTTCTGATTTTGTCAATGTTAGTATG
AGACGAAAAGTTATTGGAAAAATCATTTTTCCTGCACTTGATTCAGAACAATCATTCTTT
CGATCGTACAAAGTAATGC
>g6786.t4 Gene=g6786 Length=406
MEVSFSINGKIHKITPAAVPLDTSLTTYIRDYANLKGTKFMCLEGGCGACIVMLKGVHPV
TKQNTSWAVNSCLQNIYSCHGLDIITVEGIGSKKDGMHKIQKRLADFNGTQCGFCTPGMV
MNMFSLMEAKNGKVTMEEVENSFGGNICRCTGYRPILDAFKSLAIDADKNLLDACKDIED
LSDIKMCPKSGNPCSGKCSSLLNIEKNPMSFTFDDEREFHKVYNLEQLFKIMGTIKYRPY
ILIGGNTAHGVYRRSTDLKVFVDISSVEELKTYKVTENSLEVGGAVTLTEAMEIFTKVAN
ENKNFQYLHEIVKHFDKIGNPALRNVATLAGNLMLKYNYLQFPSDIYMIMETIGAKLSLL
SAPDDNLNPLNPSDFVNVSMRRKVIGKIIFPALDSEQSFFRSYKVM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g6786.t4 | CDD | cd00207 | fer2 | 3 | 54 | 0.00317403 |
| 9 | g6786.t4 | Gene3D | G3DSA:3.30.365.10 | Aldehyde Oxidoreductase; domain 4 | 1 | 406 | 1.8E-113 |
| 3 | g6786.t4 | PANTHER | PTHR11908:SF132 | ALDEHYDE OXIDASE 1-RELATED | 2 | 406 | 1.8E-99 |
| 4 | g6786.t4 | PANTHER | PTHR11908 | XANTHINE DEHYDROGENASE | 2 | 406 | 1.8E-99 |
| 2 | g6786.t4 | Pfam | PF01799 | [2Fe-2S] binding domain | 86 | 160 | 1.6E-27 |
| 1 | g6786.t4 | Pfam | PF00941 | FAD binding domain in molybdopterin dehydrogenase | 219 | 365 | 1.2E-20 |
| 8 | g6786.t4 | ProSitePatterns | PS00197 | 2Fe-2S ferredoxin-type iron-sulfur binding region signature. | 42 | 50 | - |
| 11 | g6786.t4 | ProSiteProfiles | PS51085 | 2Fe-2S ferredoxin-type iron-sulfur binding domain profile. | 1 | 90 | 8.716 |
| 10 | g6786.t4 | ProSiteProfiles | PS51387 | PCMH-type FAD-binding domain profile. | 212 | 395 | 16.691 |
| 7 | g6786.t4 | SUPERFAMILY | SSF54292 | 2Fe-2S ferredoxin-like | 1 | 90 | 6.28E-18 |
| 5 | g6786.t4 | SUPERFAMILY | SSF47741 | CO dehydrogenase ISP C-domain like | 98 | 184 | 1.57E-30 |
| 6 | g6786.t4 | SUPERFAMILY | SSF56176 | FAD-binding/transporter-associated domain-like | 216 | 392 | 8.18E-26 |
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:0009055 | electron transfer activity | MF |
| GO:0051537 | 2 iron, 2 sulfur cluster binding | MF |
| GO:0050660 | flavin adenine dinucleotide binding | MF |
| GO:0055114 | NA | NA |
| GO:0051536 | iron-sulfur cluster binding | MF |
| GO:0046872 | metal ion binding | MF |
| GO:0016491 | oxidoreductase activity | MF |
| GO:0071949 | FAD 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. There were no conditions that were differentially expressed