General information for g6652.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Xanthine dehydrogenase.
Parent gene
- The parent gene g6652 is located on chr_2: 17947216..17949166 (+ 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 | g6652 | g6652.t3 | isoform | g6652.t3 | 17947216 | 17949166 |
| chr_2 | g6652 | g6652.t3 | exon | g6652.t3.exon1 | 17947216 | 17948745 |
| chr_2 | g6652 | g6652.t3 | cds | g6652.t3.CDS1 | 17947282 | 17948745 |
| chr_2 | g6652 | g6652.t3 | exon | g6652.t3.exon2 | 17949107 | 17949166 |
| chr_2 | g6652 | g6652.t3 | cds | g6652.t3.CDS2 | 17949107 | 17949166 |
| chr_2 | g6652 | g6652.t3 | TTS | g6652.t3 | 17949229 | 17949229 |
| chr_2 | g6652 | g6652.t3 | TSS | g6652.t3 | NA | NA |
Sequences
>g6652.t3 Gene=g6652 Length=1590
TTAGGTGCCCTTGTTTCATTACCAGTTACATTTGCTGCATATAAATTAAATCGACCAGTG
CGTTTAATGTTGGATCGTGATGAAGATATGATGATTACCGGCACTCGTCATCCTTTTTTA
TTCAAATATAAAGTTGGGTTTATGAATAATGGAAAAATCATGGGATGTGACTTAAAGGTT
TACAACAATGCTGGATATTCCTTCGATCTCTCATTTAGTGTTCTTGATCGTGCAATATTT
CATTTTCAAAATGCATATAAAATACCTAATGTACGAATTGAAGGAAATTGTATGAAAACT
AATATGCCTTCAAATACTGCTTTTCGTGGATTTGGAGGACCACAAGGAATGATGGTTGGA
GAAAACATTATTAGACAGATTGCAAAGAAATTGAATAAAGATTTAACAGAGATAATGGAT
ATTAATCTTTACAATGAAGGTGATATAACACATTATAATCAGCTTCTTTCAAATTGTAAT
GTTCGTAGGTGCTTTGAAGAAGTTCAAAAAAGTTCAAATTTTGCAAAGAGAAGAAATGAA
ATTGCAATATTTAATGAAAAAAATCGTTGGAAAAAACGAGGAATAAGTATCGTGAATACT
ATGTTTGGAATTGCTTTTACGGCATTACATTTAAATCAAACAGGTGCTCTGGTTCATGTA
TATGTCGATGGTTCAGTTCTTATTAGCCATGGGGGTGTTGAAATGGGTCAAGGGCTGCAT
ACAAAAATTTTACAAGTTGCAGCTACTACTCTTAAAATTCCATTGGAAAAAATTCATATT
CAAGAGACAGCGACAGACAAAGTTCCAAATACATCGCCTACAGCTGCTTCTGCTGGGTCA
GATTTAAATGGCGGTGCAGTTTTAAATGCTTGCAAAATTATATATGATCGTCTTGCTCCG
TATCGTGAAAATTATCCTAATGAAAAATGGGAGCAATGGGTTTATAAAGCTTATTTTGAT
CGAGTCTCATTATCTGCAACTGGTTTTTATGCTACACCTGATATCGGATACGACCCAAGT
ACAAATTCAGGACATCCGTTTAATTATTTTACTTATGGTTCAGCAGTTTCTGAAGTAGAG
ATTGATTGTTTAACTGGTGATCATCAAGTAATAAGAACTGATATAGTTATGGATGTTGGA
AGTTCTTTGAATCCAGCTATCGACATTGGTCAAATAGAAGGTGCATTCATTCAGGGATAC
GGTTTGTTTGTGCTCGAAGAACTGATTTATTCACCGACTGGAACATTGTACTCAAAAGGA
CCTGGAATGTATAAAATTCCAGGTTTTGGTGATATACCAGCTGAATTTAACGTTTCTCTT
CTTACTGGATCATCGAATCCTAGAGCTGTTTATTCGTCAAAAGCAATAGGTGAGCCACCT
TTATTCTTAGCATCATCTGTTTTCTTCGCAATAAAAGAAGCCATTGGAGCAGCAAGAATA
GAGGAGGGATTAGAGTCAGATTTTCAACTACTTTGTCCTGCAACTTCATCAAGAATCAGA
ATGGCTTGTAAAGATAATATAACGAAAAAGTTTGACGAATACGAGGAATCTAAACATAAA
AACATGAAACCATGGAACGTTATGCCTTAA
>g6652.t3 Gene=g6652 Length=507
MLDRDEDMMITGTRHPFLFKYKVGFMNNGKIMGCDLKVYNNAGYSFDLSFSVLDRAIFHF
QNAYKIPNVRIEGNCMKTNMPSNTAFRGFGGPQGMMVGENIIRQIAKKLNKDLTEIMDIN
LYNEGDITHYNQLLSNCNVRRCFEEVQKSSNFAKRRNEIAIFNEKNRWKKRGISIVNTMF
GIAFTALHLNQTGALVHVYVDGSVLISHGGVEMGQGLHTKILQVAATTLKIPLEKIHIQE
TATDKVPNTSPTAASAGSDLNGGAVLNACKIIYDRLAPYRENYPNEKWEQWVYKAYFDRV
SLSATGFYATPDIGYDPSTNSGHPFNYFTYGSAVSEVEIDCLTGDHQVIRTDIVMDVGSS
LNPAIDIGQIEGAFIQGYGLFVLEELIYSPTGTLYSKGPGMYKIPGFGDIPAEFNVSLLT
GSSNPRAVYSSKAIGEPPLFLASSVFFAIKEAIGAARIEEGLESDFQLLCPATSSRIRMA
CKDNITKKFDEYEESKHKNMKPWNVMP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g6652.t3 | Gene3D | G3DSA:3.30.365.10 | Aldehyde Oxidoreductase; domain 4 | 1 | 11 | 0 |
| 6 | g6652.t3 | Gene3D | G3DSA:3.30.365.10 | Aldehyde Oxidoreductase; domain 4 | 12 | 134 | 0 |
| 8 | g6652.t3 | Gene3D | G3DSA:3.30.365.10 | Aldehyde Oxidoreductase; domain 4 | 135 | 485 | 0 |
| 7 | g6652.t3 | Gene3D | G3DSA:3.30.365.10 | Aldehyde Oxidoreductase; domain 4 | 186 | 313 | 0 |
| 2 | g6652.t3 | PANTHER | PTHR11908 | XANTHINE DEHYDROGENASE | 1 | 488 | 0 |
| 3 | g6652.t3 | PANTHER | PTHR11908:SF100 | XANTHINE DEHYDROGENASE | 1 | 488 | 0 |
| 1 | g6652.t3 | Pfam | PF02738 | Molybdopterin-binding domain of aldehyde dehydrogenase | 1 | 411 | 0 |
| 4 | g6652.t3 | SUPERFAMILY | SSF56003 | Molybdenum cofactor-binding domain | 1 | 486 | 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:0055114 | NA | NA |
| 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.
