General information for g6785.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Xanthine dehydrogenase.
Parent gene
- The parent gene g6785 is located on chr_2: 18595038..18599329 (- 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 | g6785 | g6785.t1 | TTS | g6785.t1 | 18594993 | 18594993 |
| chr_2 | g6785 | g6785.t1 | isoform | g6785.t1 | 18595038 | 18599329 |
| chr_2 | g6785 | g6785.t1 | exon | g6785.t1.exon1 | 18595038 | 18595225 |
| chr_2 | g6785 | g6785.t1 | cds | g6785.t1.CDS1 | 18595038 | 18595225 |
| chr_2 | g6785 | g6785.t1 | exon | g6785.t1.exon2 | 18595287 | 18596093 |
| chr_2 | g6785 | g6785.t1 | cds | g6785.t1.CDS2 | 18595287 | 18596093 |
| chr_2 | g6785 | g6785.t1 | exon | g6785.t1.exon3 | 18596152 | 18596412 |
| chr_2 | g6785 | g6785.t1 | cds | g6785.t1.CDS3 | 18596152 | 18596412 |
| chr_2 | g6785 | g6785.t1 | exon | g6785.t1.exon4 | 18596469 | 18597020 |
| chr_2 | g6785 | g6785.t1 | cds | g6785.t1.CDS4 | 18596469 | 18597020 |
| chr_2 | g6785 | g6785.t1 | exon | g6785.t1.exon5 | 18597080 | 18597296 |
| chr_2 | g6785 | g6785.t1 | cds | g6785.t1.CDS5 | 18597080 | 18597296 |
| chr_2 | g6785 | g6785.t1 | exon | g6785.t1.exon6 | 18597358 | 18598688 |
| chr_2 | g6785 | g6785.t1 | cds | g6785.t1.CDS6 | 18597358 | 18598688 |
| chr_2 | g6785 | g6785.t1 | exon | g6785.t1.exon7 | 18598748 | 18598946 |
| chr_2 | g6785 | g6785.t1 | cds | g6785.t1.CDS7 | 18598748 | 18598946 |
| chr_2 | g6785 | g6785.t1 | exon | g6785.t1.exon8 | 18599011 | 18599183 |
| chr_2 | g6785 | g6785.t1 | cds | g6785.t1.CDS8 | 18599011 | 18599183 |
| chr_2 | g6785 | g6785.t1 | exon | g6785.t1.exon9 | 18599290 | 18599329 |
| chr_2 | g6785 | g6785.t1 | cds | g6785.t1.CDS9 | 18599290 | 18599329 |
| chr_2 | g6785 | g6785.t1 | TSS | g6785.t1 | 18599877 | 18599877 |
Sequences
>g6785.t1 Gene=g6785 Length=3768
ATGGAAGCGTTATTTACTATCAACGGTAAACAATATATAGCAAAACCATCAACTATTCCA
ATCGAAACAACTCTTAATGATTTTATTCGTAAACATGCAAAACTTACGGGAAACAAATTC
ATGTGCTTGGAGGGAGGATGTGGTGCATGTATTGTGATGCTGAAAGGTGTTCATCCTGTT
ACAAAGCAAAATACTTCTTGGGCTGTTAATTCTTGTCTTCAAAATATCTATTCATGTCAT
GGTCTTGATATCATAACTGTTGAAGGAATTGAGTCAAAAAAGATGGCATGCATAAAGATT
CAAAAACGATTGGCTGATTTTATGGAACTCAATGTGGATTTTGTCTCCTGGGATGGTCAT
GAATATGTTTTCATTGATGGAAGCGAAAAATGGAAAAGTGACAATGGAAGAAATGCATTC
AAATCACTTGCAATTGATGCTGATAAGAAACTTTTGGATGCATGCAAGGACATTGAAGAT
TTGAGTGATATTAAAATGTGTCCAAAATCAGGAAATATTTGTTCTGGCAAATGCAGTTCA
TTGTTGAATATTGAAAAAAATCCAATGAGCTTCACTTTTGATGATGAACGCGAGTTTCAC
AAAGTTTACACTATCAATGAAATTTTCAAAATTTTTGAAACTATTGGAGAGAAACCATAC
ATTTTGATTGGAGGCAACACTGCTCATGGTGTATATCGTCGATCAACAGATTTGAAAGTT
TTTGTTGATATTTCGAGTGTTGAAGAGTTGAAAACCTACAAAGTTACTGAGAATTCATTA
GAAGTTGGTGGAGCAGTAACTTTAACTGAAGCAATGGAGATTTTTACCAAAGTTGCAAAT
GAAAATAAAAACTTTCAATATTTGCATGAAATCGTCAAACATTTTGATTTGATAGCTAAT
GTACCAGTGCGAAACAATGGAACACTTGCTGGAAATTTAATGATAAAAAATGCACACAAC
GAATTTCCTTCTGATATTTTCATTTGTTTTGAAGCTATTGGTGCAGTGATCAGTATTCAA
TCATCTACAAAATCGAGTTGGTCATCATATTTTAACAAGGGAATTGAAATATCGCCAAAA
GATTTTATTTTTACCGATATGAATAAGAAAGTTTTGACTAAAATAACATTACCAGCAATT
GATCCAGTTATATTTTTTTATCGCTCTTATAAAATAATGCCTCGAGCTCAAAACGCACAT
GCATATGTCAATGCAGCATTTCTTGTGCAATTAAATGACTCGAAAGTTATTTCAGCTAAA
ATTTGCTTTGGTGGTATTGATCCTAAATTTGTACATGCTACAAATACTGAAACATTCTTG
ATTGGTGAAAATCTTTTTGAGAACAGCACTTTACAGCGTGCTTTAGCAATATTAAATGAT
GAACTCAAACCAGACTGGGTTCTACCTGATGCTTCACCAGAATATCGTAAAAATCTTGCT
CTTGCACTTTTCTATAAATTTATTCTTAATATTGCACCAAATGAAAAAGTGGTTGCAAAA
TTTAAAAGTGGTGGAGAAATTCTTAAACGTGATTTATCATCAGGCACTCAAACTTTTGAC
ACATATAAACAAAACTGGCCTCTTACCAAGAATATTTCTAAAATTGAAGCAGATGTTCAA
TGTACTGGTGAAGCTAAATATATAAATGACCATCCACCACTTCCAAATGAACTTCATGCT
GCTTTCGTGACCGCAAAGAATGTTCACGGAGAGATTTTAAATATTGATGCTAGCAAAGCT
TTGAAAATGCCAGGCGTAGTTGCATTCTTTTCAGCAAAAGACATTCCAGGTACAAATACA
TTCATGCCGCCAAAAATGATGCCAGGGACTGAAGTTGAAGAGATATTTGCTAGCAAAATT
ATTCGCTTTCACCATCAACCTGTTGGTATTATTGTTGCTGATACCATGGAAATTGCAAAC
CAAGCAGCCGAATTCGTACAAATTTCTTACAAACAAACAAATGAAATAAAACTTATTTTA
CCAACGCTCAAAGATGTAATAGAAAATGAACCTGAACGAGTTGAAGATTTTCCACAATTT
TCAAAAATGTCTGAAGGTAAAGGCATTGAAACCGAATTAAAGATCAGTGGACGTTTTGAA
TTAGGTTTACAATATCATTACACTATGGAAACGCAATCATGCTTATGCATTCCTATTGAA
GATGGAATTGATGTTTATTCTTCAACACAATGGATGGATGCAACACAAATGGCTATTGCT
GATATGCTTAAGTTGCCAAATAATGCAGTAAATATGAATGTTCGCCGGCTAGGAGGTGGT
TATGGAGCTAAAATATCGAGAGGCAATCAAGTTGCTTGTGCAAGCTCACTTGCTGCTTAT
TTATTAAATCGTCCTGTGAGATTTGTAATGAAAATTGAAGCAAATATTAGTATAATTGGA
AAACGTTATGCGTGCATCAATTATTATGATGTGATGTTTGATCAAAATGGAAAAATTCAG
GAGTTAAATTCAGCTTTTACAGAAGACTTTGGATCTTCTAGAAATGAACCAGTTCATATG
GGAACAGCTAAATTCTTTCTTAATTGTTATGATCACAAGTTTTTTAAAGTTGATGCAAAA
GCTGCTGTTACTGATGCTCCAGCCAATACATGGTGTCGTGCACCTGGAACTGTCGAAGGA
ATTGGAATGGTAGAAAATATTATGGATCATATTGCTTATGTTTTGAAAAAAGATCCTATT
GATGTTCGTATTGCCAACCTTCCATCTGACAGTGAAATGCACAAGTATTTGCAAGACTTT
TTGAAGTCTACAGATTATCGTAAAAGACGTAAGGAAATTGACTCATACAACATAAATAAC
CGCTGGATTAAACGAGGTATTGCAATTGTTCCAATGAAATATCCAATGGAATATTTTGGT
ACAAGTCATGCTTTGGTTTCAATATACCATGGTGATGGGTCAGTATCTGTGACAGTTGGG
GGTATTGAGATGGGTCAAGGTCTTAATACAAAAGTAGCACAAACTGCTGCTTATGCACTT
GGCATTCCACTTGAAAAAGTTAGTGTGAAACCATCAAATTCACTCACAGCACCAAATGCA
ATAGTGACAGGTGGCAGTCAGGGCAGTGAAATTTCATGTTATGGTGTAAAAAAAGCTTGT
GAAATTTTAAATGATCGCCTCAAACCAATAAGAGAGAAAAATAAAAATACAAATTGGAAC
GAAATTATTGATAAAGCAATTGAGGAAGAAGTTGATTTGGCTGCAATGTATATGTACAAA
TCTTCAGATGTAAAAACATATGATATTTGGGGTGCATCATGTTGTGAACTTGAAGTTGAT
ATTCTTACTGGAAATATTTTAATTAAACGAGTTGATATCATGGAAGATGTCGGTGAATCA
ATAAGCCCTGGAATCGATGTTGGACAAATTGAAGGTGGATTTGTTATGGGACTTGGTTAT
TGGTTAACTGAAAATTTAATTTATGACCGTATAACTGGAGAATTATTGACTAATCGTTCA
TGGAATTATAAACCACCAGGTGCAAAGGATATTCCAATTGATTTCCGAATAAGCTTTCTA
AGCAAAAGCTCTAATCCATTTGGTGTATTAAGATCAAAAGCTACTGGAGAACCTAGCACA
GCAATGGCTGTTGTCGCTCTCTTTGCACTTCATCATGCTCTTGACTCAGCAAGAAAAGAT
GCTGGTACTTATGAAAACGGATATCAGCATAATTTAGGTGCCCCAACAACAACAGAAAAT
ATTTTCTTAGCAGCAGACACGACATATGATCAATTTTTATTAAAATAA
>g6785.t1 Gene=g6785 Length=1255
MEALFTINGKQYIAKPSTIPIETTLNDFIRKHAKLTGNKFMCLEGGCGACIVMLKGVHPV
TKQNTSWAVNSCLQNIYSCHGLDIITVEGIESKKMACIKIQKRLADFMELNVDFVSWDGH
EYVFIDGSEKWKSDNGRNAFKSLAIDADKKLLDACKDIEDLSDIKMCPKSGNICSGKCSS
LLNIEKNPMSFTFDDEREFHKVYTINEIFKIFETIGEKPYILIGGNTAHGVYRRSTDLKV
FVDISSVEELKTYKVTENSLEVGGAVTLTEAMEIFTKVANENKNFQYLHEIVKHFDLIAN
VPVRNNGTLAGNLMIKNAHNEFPSDIFICFEAIGAVISIQSSTKSSWSSYFNKGIEISPK
DFIFTDMNKKVLTKITLPAIDPVIFFYRSYKIMPRAQNAHAYVNAAFLVQLNDSKVISAK
ICFGGIDPKFVHATNTETFLIGENLFENSTLQRALAILNDELKPDWVLPDASPEYRKNLA
LALFYKFILNIAPNEKVVAKFKSGGEILKRDLSSGTQTFDTYKQNWPLTKNISKIEADVQ
CTGEAKYINDHPPLPNELHAAFVTAKNVHGEILNIDASKALKMPGVVAFFSAKDIPGTNT
FMPPKMMPGTEVEEIFASKIIRFHHQPVGIIVADTMEIANQAAEFVQISYKQTNEIKLIL
PTLKDVIENEPERVEDFPQFSKMSEGKGIETELKISGRFELGLQYHYTMETQSCLCIPIE
DGIDVYSSTQWMDATQMAIADMLKLPNNAVNMNVRRLGGGYGAKISRGNQVACASSLAAY
LLNRPVRFVMKIEANISIIGKRYACINYYDVMFDQNGKIQELNSAFTEDFGSSRNEPVHM
GTAKFFLNCYDHKFFKVDAKAAVTDAPANTWCRAPGTVEGIGMVENIMDHIAYVLKKDPI
DVRIANLPSDSEMHKYLQDFLKSTDYRKRRKEIDSYNINNRWIKRGIAIVPMKYPMEYFG
TSHALVSIYHGDGSVSVTVGGIEMGQGLNTKVAQTAAYALGIPLEKVSVKPSNSLTAPNA
IVTGGSQGSEISCYGVKKACEILNDRLKPIREKNKNTNWNEIIDKAIEEEVDLAAMYMYK
SSDVKTYDIWGASCCELEVDILTGNILIKRVDIMEDVGESISPGIDVGQIEGGFVMGLGY
WLTENLIYDRITGELLTNRSWNYKPPGAKDIPIDFRISFLSKSSNPFGVLRSKATGEPST
AMAVVALFALHHALDSARKDAGTYENGYQHNLGAPTTTENIFLAADTTYDQFLLK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g6785.t1 | Gene3D | G3DSA:3.30.365.10 | Aldehyde Oxidoreductase; domain 4 | 1 | 110 | 9.4E-32 |
| 12 | g6785.t1 | Gene3D | G3DSA:3.30.465.10 | - | 195 | 380 | 3.5E-21 |
| 13 | g6785.t1 | Gene3D | G3DSA:3.30.390.50 | - | 385 | 495 | 1.2E-38 |
| 19 | g6785.t1 | Gene3D | G3DSA:3.90.1170.50 | - | 561 | 654 | 1.8E-255 |
| 14 | g6785.t1 | Gene3D | G3DSA:3.30.365.10 | Aldehyde Oxidoreductase; domain 4 | 666 | 915 | 1.8E-255 |
| 18 | g6785.t1 | Gene3D | G3DSA:3.30.365.10 | Aldehyde Oxidoreductase; domain 4 | 706 | 799 | 1.8E-255 |
| 16 | g6785.t1 | Gene3D | G3DSA:3.30.365.10 | Aldehyde Oxidoreductase; domain 4 | 916 | 1241 | 1.8E-255 |
| 17 | g6785.t1 | Gene3D | G3DSA:3.30.365.10 | Aldehyde Oxidoreductase; domain 4 | 959 | 1084 | 1.8E-255 |
| 5 | g6785.t1 | PANTHER | PTHR11908:SF132 | ALDEHYDE OXIDASE 1-RELATED | 5 | 1254 | 0.0 |
| 6 | g6785.t1 | PANTHER | PTHR11908 | XANTHINE DEHYDROGENASE | 5 | 1254 | 0.0 |
| 21 | g6785.t1 | PIRSF | PIRSF000127 | Xanthine_dh | 1 | 109 | 5.5E-34 |
| 20 | g6785.t1 | PIRSF | PIRSF000127 | Xanthine_dh | 124 | 1255 | 0.0 |
| 1 | g6785.t1 | Pfam | PF00941 | FAD binding domain in molybdopterin dehydrogenase | 199 | 347 | 5.6E-21 |
| 3 | g6785.t1 | Pfam | PF03450 | CO dehydrogenase flavoprotein C-terminal domain | 388 | 490 | 2.9E-32 |
| 4 | g6785.t1 | Pfam | PF01315 | Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain | 542 | 653 | 3.6E-28 |
| 2 | g6785.t1 | Pfam | PF02738 | Molybdopterin-binding domain of aldehyde dehydrogenase | 692 | 1172 | 4.1E-126 |
| 22 | g6785.t1 | ProSitePatterns | PS00197 | 2Fe-2S ferredoxin-type iron-sulfur binding region signature. | 42 | 50 | - |
| 25 | g6785.t1 | ProSiteProfiles | PS51387 | PCMH-type FAD-binding domain profile. | 192 | 382 | 18.738 |
| 23 | g6785.t1 | SMART | SM01092 | CO_deh_flav_C_2 | 388 | 491 | 2.6E-27 |
| 24 | g6785.t1 | SMART | SM01008 | Ald_Xan_dh_C_2 | 542 | 654 | 2.7E-39 |
| 11 | g6785.t1 | SUPERFAMILY | SSF54292 | 2Fe-2S ferredoxin-like | 1 | 90 | 8.53E-17 |
| 10 | g6785.t1 | SUPERFAMILY | SSF56176 | FAD-binding/transporter-associated domain-like | 196 | 379 | 1.36E-28 |
| 7 | g6785.t1 | SUPERFAMILY | SSF55447 | CO dehydrogenase flavoprotein C-terminal domain-like | 386 | 494 | 6.15E-33 |
| 9 | g6785.t1 | SUPERFAMILY | SSF54665 | CO dehydrogenase molybdoprotein N-domain-like | 516 | 655 | 4.32E-41 |
| 8 | g6785.t1 | SUPERFAMILY | SSF56003 | Molybdenum cofactor-binding domain | 692 | 1245 | 4.84E-143 |
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:0005506 | iron ion binding | MF |
| GO:0050660 | flavin adenine dinucleotide binding | MF |
| GO:0055114 | NA | NA |
| GO:0051536 | iron-sulfur cluster binding | MF |
| GO:0016491 | oxidoreductase activity | MF |
| GO:0071949 | FAD binding | MF |
KEGG
Orthology
- This transcript has been annotated with K00106 (xanthine dehydrogenase/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.
