General information for g6786.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Xanthine dehydrogenase.
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.t1 | TSS | g6786.t1 | 18601649 | 18601649 |
| chr_2 | g6786 | g6786.t1 | isoform | g6786.t1 | 18601763 | 18606466 |
| chr_2 | g6786 | g6786.t1 | exon | g6786.t1.exon1 | 18601763 | 18601802 |
| chr_2 | g6786 | g6786.t1 | cds | g6786.t1.CDS1 | 18601763 | 18601802 |
| chr_2 | g6786 | g6786.t1 | exon | g6786.t1.exon2 | 18602279 | 18602451 |
| chr_2 | g6786 | g6786.t1 | cds | g6786.t1.CDS2 | 18602279 | 18602451 |
| chr_2 | g6786 | g6786.t1 | exon | g6786.t1.exon3 | 18602514 | 18603378 |
| chr_2 | g6786 | g6786.t1 | cds | g6786.t1.CDS3 | 18602514 | 18603378 |
| chr_2 | g6786 | g6786.t1 | exon | g6786.t1.exon4 | 18603432 | 18604141 |
| chr_2 | g6786 | g6786.t1 | cds | g6786.t1.CDS4 | 18603432 | 18604141 |
| chr_2 | g6786 | g6786.t1 | exon | g6786.t1.exon5 | 18604200 | 18604425 |
| chr_2 | g6786 | g6786.t1 | cds | g6786.t1.CDS5 | 18604200 | 18604425 |
| chr_2 | g6786 | g6786.t1 | exon | g6786.t1.exon6 | 18604483 | 18604797 |
| chr_2 | g6786 | g6786.t1 | cds | g6786.t1.CDS6 | 18604483 | 18604797 |
| chr_2 | g6786 | g6786.t1 | exon | g6786.t1.exon7 | 18604861 | 18605097 |
| chr_2 | g6786 | g6786.t1 | cds | g6786.t1.CDS7 | 18604861 | 18605097 |
| chr_2 | g6786 | g6786.t1 | exon | g6786.t1.exon8 | 18605150 | 18605410 |
| chr_2 | g6786 | g6786.t1 | cds | g6786.t1.CDS8 | 18605150 | 18605410 |
| chr_2 | g6786 | g6786.t1 | exon | g6786.t1.exon9 | 18605475 | 18606466 |
| chr_2 | g6786 | g6786.t1 | cds | g6786.t1.CDS9 | 18605475 | 18606466 |
| chr_2 | g6786 | g6786.t1 | TTS | g6786.t1 | 18606898 | 18606898 |
Sequences
>g6786.t1 Gene=g6786 Length=3819
ATGGAAGTTTCATTTTCAATTAATGGAAAAATTCATAAGATAACGCCGGCAGCTGTTCCG
CTCGATACGTCATTGACTACGTACATTCGTGACTATGCAAACTTGAAGGGAACAAAATTT
ATGTGCTTGGAGGGAGGATGTGGTGCATGTATTGTGATGCTGAAAGGTGTTCATCCTGTT
ACAAAGCAAAATACTTCTTGGGCTGTTAATTCTTGTCTTCAAAATATCTATTCATGTCAT
GGTCTTGATATCATAACTGTTGAAGGAATTGGTAGCAAAAAGGATGGCATGCATAAAATT
CAAAAACGATTGGCTGATTTTAATGGAACTCAATGTGGATTTTGTACTCCTGGGATGGTC
ATGAATATGTTTTCATTGATGGAAGCGAAAAATGGAAAAGTGACAATGGAAGAAGTTGAG
AATTCGTTTGGTGGAAATATATGCAGATGCACTGGTTATCGACCAATTTTAGATGCATTC
AAATCACTTGCAATTGATGCTGATAAGAATCTTTTGGATGCATGCAAGGACATTGAAGAT
TTGAGTGATATTAAAATGTGTCCAAAATCAGGAAATCCTTGTTCTGGCAAATGCAGTTCA
TTGTTGAATATTGAAAAAAATCCAATGAGCTTCACTTTTGATGATGAACGCGAGTTTCAC
AAAGTTTATAATTTAGAACAACTTTTTAAGATAATGGGAACAATAAAATATCGTCCATAC
ATTTTGATTGGAGGCAACACTGCTCATGGTGTATATCGTCGATCAACAGATTTGAAAGTT
TTCGTTGATATTTCGAGTGTTGAAGAGTTGAAAACTTACAAAGTTACTGAGAATTCATTA
GAAGTTGGTGGAGCAGTAACTCTAACTGAAGCAATGGAGATTTTTACAAAAGTTGCAAAT
GAAAATAAGAACTTTCAATATTTGCATGAAATCGTCAAGCATTTTGATAAAATTGGTAAT
CCAGCTCTTAGAAATGTTGCAACTCTTGCTGGAAATTTAATGCTTAAATATAATTATCTT
CAATTTCCATCTGATATTTATATGATCATGGAAACTATTGGTGCAAAATTGTCACTATTA
TCTGCACCTGATGATAACCTTAACCCTTTGAACCCTTCTGATTTTGTCAATGTTAGTATG
AGACGAAAAGTTATTGGAAAAATCATTTTTCCTGCACTTGATTCAGAACAATCATTCTTT
CGATCGTACAAAGTAATGCCAAGAGCACAAAATTCATATTCTTACACCAATGCATCTTTT
TTGTTGAAATTCAATACAAACAAAGATTCTGTAGTTGATGCAAAAATTTGTTATGCAGGA
ATTAGCGAAGACTTGACGCATGCTGAAAGAACCGAAAAATTTATCAAAGATAAAAATATT
TTCGTTAATGAAGTCTTGCAGCAAGTATTTGAAAAATTGTCTTCAGAAGTTCATCCAGAC
GCAAAGTTGCCACTGGCTGCTGATGACTATCGCAAAAATTTGGCAGTTTCTTTATTCTAT
AAATTTATTCTTGACATTGCACCTAAAAATATAATTGACACAAAGTATAAAACTGGTTCA
GCTGTATTAAAACGTGAAATATCAACAGCAAGCCAAGAATTTGAATATATTGAAAGCAGA
TCCAAACTTTACAAAAAGATCCCTAAAGTTGAAGGTGAAGTTCAGTGTACTGGAGAAACT
CAGTACATAAATGACCTTCCTAAACAGCATAACGAGCTTTTTGCTGCGTTTGTTCTTGGC
GATAAAGTTAATGGAATCATTAAGAATATTGATGCTACTGAAGCATTGCAAATGTCTGGA
GTAATTGCATTCTTCTCAGCAAAAGATATTCCTGGAATAAACAATTTTATGCCACTTTGT
TTCGATGGTTTTAATTATGATGTTGAAGAAATTTTCTGCAGTGGCAAATTGTTATACCAT
GGACAACCAGTTGGAATTATTTTGGCTGAAAGTTTTGATTTAGCTTATAAAGCTAGAAAT
TTTGTCAAAGTTGAATATTCTTATGAAAAAGAAGATGAACCAATTTATCCAACAATACGA
GAAGTTTATAAGGCAAAAGCTTCTGATCGTTTGATAGATATTCCAAAGTATTTTATACAA
GCTGAAAAATGTGGAACTGACAGAAAACACAAAATTAAAGGACATTTTGAAATGGCATCA
ACACAATATCATCATTATATGGAAACACAACAATGTGTTTGTATTCCAAGTGAGGATGGA
ATGGATATTTATTCTTCTTCACAATGGACAGATACTGCACATGTTGCTGTTGCTGAAATG
TTGAAAGTTCCTCAAAACACTTTGAATTTCTTTGTTCGTAGAATTGGCGGAGCATTTGGT
GGTAAAATTTCAAGACATGCTCAAATTGCATGTGCGGCTGCATTAGGTTGTTATTTAACT
AGAAAACCAGTTCGATTGATTATGACCATGGAAGATAATATGAGAGCAATTGGAAAGAGA
TTTTCAGCTATTAGTGATTATGATGTTGAATTTGATGATACAGGAAAAATCCAAAAATTG
CATCATCATTATATTCAAGATCAAGGATGTTCTTTGAATGAACCAGTTCAATTTAACACA
TCAGTCTTTATTAAAAACTGTTACAATATTGAATCTTGGGATGTCACTACACAAAGCGCT
TTATCACATTCAGCGTCAAATACTTGGATGAGAGCTCCAGGAACTACTGAAGCAATTGCT
ATGACAGAACATGTTATGGAACACATTGCAAGAACACTTGGAAAAGATCCAGTAGATGTA
AGAATGGCAAATTTAACTGAAGACAGCGTGTTTAAAACAATGATGCCTGAATTTGTTTCA
AACGTTGAATATAAACAACGAAAGGCAGAAATTGATAAATTTAATTCATTAAATAGATGG
ACAAAGCGCGGAATCGCAATTGTCCCTATGAAATATTATATTTTTTGTGTAGGCACTATG
CATGGAACAGTTTCAATTTATCATGGTGATGGCACAATTGCTTTAAGTACAGGTGGCATT
GAAATGGGACAAGGCCTTAATACTAAGATCATTCAAGTTGCATCACATATTCTTAATCTT
CCAATCGATAAGTTTGTCATCAAACCATCAAATACACTAAATAATGCAAACGATGTTGGA
ACTGTTGCTAGCGTAACTTCAGAAATTTCATGCTTTGTTATCAAAAACTGTTGTGAAATG
CTACTCGAACGGTTGAAACCAATTAAAGATGAAAATCCAGATGCAACTTGGGAAAAAATA
GTGGACATTGCTTTTAAGAAAAATATTGACTTGTCAGTTACTTTTATGTACAAGGAAGAA
GATATGGTGCCATATTATGTTTATGGATTAAGTTGTGCTGAAGTTGAAGTTGATTTTCTT
ACTGGAAATATGTTATTAAAAAGAGTGGATATTTTAGAAGACACTGGCGAAAGCATGAGT
CCTGGAATTGATATTGGACAAATTGAAGGAGGATTTGTTATTGGATTAGGTATATGGCTA
ACTGAGAATTTAGTGTATGATCAAAAAACAGCAGAATTATTGACTGATCGCTCATTTAAT
TATAAACCACCTGGTGCTCAAGATATTCCTGTAGATTTCCGTATAAAACTTGTTCAAAAA
TCACCAAATAAATTCTTTGTGTTGAGAAGTAAAGCATGTAGTGAACCACCAGTAACAATG
GCAGTTGTAGTTAGTTTTGCATTACGTTATGCAATCGATGCAGCTCGACGTGATAATGGC
CTTAAAGATTCAGATTGGTATACATTAGAAGCACCAGTTAGTCCTGACAAAATCTTTTTG
ATGGCCAATAACAAAATCCAAGACTATAAATTAAATTAA
>g6786.t1 Gene=g6786 Length=1272
MEVSFSINGKIHKITPAAVPLDTSLTTYIRDYANLKGTKFMCLEGGCGACIVMLKGVHPV
TKQNTSWAVNSCLQNIYSCHGLDIITVEGIGSKKDGMHKIQKRLADFNGTQCGFCTPGMV
MNMFSLMEAKNGKVTMEEVENSFGGNICRCTGYRPILDAFKSLAIDADKNLLDACKDIED
LSDIKMCPKSGNPCSGKCSSLLNIEKNPMSFTFDDEREFHKVYNLEQLFKIMGTIKYRPY
ILIGGNTAHGVYRRSTDLKVFVDISSVEELKTYKVTENSLEVGGAVTLTEAMEIFTKVAN
ENKNFQYLHEIVKHFDKIGNPALRNVATLAGNLMLKYNYLQFPSDIYMIMETIGAKLSLL
SAPDDNLNPLNPSDFVNVSMRRKVIGKIIFPALDSEQSFFRSYKVMPRAQNSYSYTNASF
LLKFNTNKDSVVDAKICYAGISEDLTHAERTEKFIKDKNIFVNEVLQQVFEKLSSEVHPD
AKLPLAADDYRKNLAVSLFYKFILDIAPKNIIDTKYKTGSAVLKREISTASQEFEYIESR
SKLYKKIPKVEGEVQCTGETQYINDLPKQHNELFAAFVLGDKVNGIIKNIDATEALQMSG
VIAFFSAKDIPGINNFMPLCFDGFNYDVEEIFCSGKLLYHGQPVGIILAESFDLAYKARN
FVKVEYSYEKEDEPIYPTIREVYKAKASDRLIDIPKYFIQAEKCGTDRKHKIKGHFEMAS
TQYHHYMETQQCVCIPSEDGMDIYSSSQWTDTAHVAVAEMLKVPQNTLNFFVRRIGGAFG
GKISRHAQIACAAALGCYLTRKPVRLIMTMEDNMRAIGKRFSAISDYDVEFDDTGKIQKL
HHHYIQDQGCSLNEPVQFNTSVFIKNCYNIESWDVTTQSALSHSASNTWMRAPGTTEAIA
MTEHVMEHIARTLGKDPVDVRMANLTEDSVFKTMMPEFVSNVEYKQRKAEIDKFNSLNRW
TKRGIAIVPMKYYIFCVGTMHGTVSIYHGDGTIALSTGGIEMGQGLNTKIIQVASHILNL
PIDKFVIKPSNTLNNANDVGTVASVTSEISCFVIKNCCEMLLERLKPIKDENPDATWEKI
VDIAFKKNIDLSVTFMYKEEDMVPYYVYGLSCAEVEVDFLTGNMLLKRVDILEDTGESMS
PGIDIGQIEGGFVIGLGIWLTENLVYDQKTAELLTDRSFNYKPPGAQDIPVDFRIKLVQK
SPNKFFVLRSKACSEPPVTMAVVVSFALRYAIDAARRDNGLKDSDWYTLEAPVSPDKIFL
MANNKIQDYKLN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 24 | g6786.t1 | CDD | cd00207 | fer2 | 3 | 54 | 0.00693303 |
| 20 | g6786.t1 | Gene3D | G3DSA:3.10.20.30 | - | 1 | 91 | 8.9E-29 |
| 22 | g6786.t1 | Gene3D | G3DSA:1.10.150.120 | - | 92 | 217 | 8.9E-33 |
| 14 | g6786.t1 | Gene3D | G3DSA:3.30.465.10 | - | 218 | 392 | 1.1E-19 |
| 15 | g6786.t1 | Gene3D | G3DSA:3.30.390.50 | - | 395 | 509 | 8.5E-30 |
| 21 | g6786.t1 | Gene3D | G3DSA:3.90.1170.50 | - | 576 | 674 | 4.4E-247 |
| 17 | g6786.t1 | Gene3D | G3DSA:3.30.365.10 | Aldehyde Oxidoreductase; domain 4 | 675 | 929 | 4.4E-247 |
| 19 | g6786.t1 | Gene3D | G3DSA:3.30.365.10 | Aldehyde Oxidoreductase; domain 4 | 724 | 817 | 4.4E-247 |
| 16 | g6786.t1 | Gene3D | G3DSA:3.30.365.10 | Aldehyde Oxidoreductase; domain 4 | 930 | 1258 | 4.4E-247 |
| 18 | g6786.t1 | Gene3D | G3DSA:3.30.365.10 | Aldehyde Oxidoreductase; domain 4 | 977 | 1102 | 4.4E-247 |
| 6 | g6786.t1 | PANTHER | PTHR11908:SF132 | ALDEHYDE OXIDASE 1-RELATED | 2 | 1271 | 0.0 |
| 7 | g6786.t1 | PANTHER | PTHR11908 | XANTHINE DEHYDROGENASE | 2 | 1271 | 0.0 |
| 23 | g6786.t1 | PIRSF | PIRSF000127 | Xanthine_dh | 1 | 1272 | 0.0 |
| 4 | g6786.t1 | Pfam | PF01799 | [2Fe-2S] binding domain | 86 | 160 | 7.9E-27 |
| 1 | g6786.t1 | Pfam | PF00941 | FAD binding domain in molybdopterin dehydrogenase | 219 | 365 | 9.1E-20 |
| 3 | g6786.t1 | Pfam | PF03450 | CO dehydrogenase flavoprotein C-terminal domain | 401 | 505 | 1.2E-22 |
| 5 | g6786.t1 | Pfam | PF01315 | Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain | 557 | 668 | 1.4E-22 |
| 2 | g6786.t1 | Pfam | PF02738 | Molybdopterin-binding domain of aldehyde dehydrogenase | 707 | 1190 | 1.3E-122 |
| 25 | g6786.t1 | ProSitePatterns | PS00197 | 2Fe-2S ferredoxin-type iron-sulfur binding region signature. | 42 | 50 | - |
| 29 | g6786.t1 | ProSiteProfiles | PS51085 | 2Fe-2S ferredoxin-type iron-sulfur binding domain profile. | 1 | 90 | 8.716 |
| 28 | g6786.t1 | ProSiteProfiles | PS51387 | PCMH-type FAD-binding domain profile. | 212 | 395 | 16.691 |
| 26 | g6786.t1 | SMART | SM01092 | CO_deh_flav_C_2 | 401 | 506 | 6.9E-12 |
| 27 | g6786.t1 | SMART | SM01008 | Ald_Xan_dh_C_2 | 557 | 674 | 5.4E-34 |
| 13 | g6786.t1 | SUPERFAMILY | SSF54292 | 2Fe-2S ferredoxin-like | 1 | 90 | 4.13E-17 |
| 9 | g6786.t1 | SUPERFAMILY | SSF47741 | CO dehydrogenase ISP C-domain like | 98 | 183 | 9.81E-30 |
| 12 | g6786.t1 | SUPERFAMILY | SSF56176 | FAD-binding/transporter-associated domain-like | 216 | 392 | 6.54E-25 |
| 8 | g6786.t1 | SUPERFAMILY | SSF55447 | CO dehydrogenase flavoprotein C-terminal domain-like | 398 | 509 | 1.57E-22 |
| 11 | g6786.t1 | SUPERFAMILY | SSF54665 | CO dehydrogenase molybdoprotein N-domain-like | 532 | 687 | 5.1E-36 |
| 10 | g6786.t1 | SUPERFAMILY | SSF56003 | Molybdenum cofactor-binding domain | 708 | 1265 | 8.77E-138 |
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:0046872 | metal ion binding | MF |
| GO:0071949 | FAD binding | MF |
| GO:0016491 | oxidoreductase activity | 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.
