General information for g9693.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Dihydropyrimidine dehydrogenase [NADP(+)].
Parent gene
- The parent gene g9693 is located on chr_1: 4721613..4723508 (+ 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 | g9693 | g9693.t3 | TSS | g9693.t3 | 4717318 | 4717318 |
| chr_1 | g9693 | g9693.t3 | isoform | g9693.t3 | 4717457 | 4720386 |
| chr_1 | g9693 | g9693.t3 | exon | g9693.t3.exon1 | 4717457 | 4717495 |
| chr_1 | g9693 | g9693.t3 | cds | g9693.t3.CDS1 | 4717457 | 4717495 |
| chr_1 | g9693 | g9693.t3 | exon | g9693.t3.exon2 | 4718075 | 4718185 |
| chr_1 | g9693 | g9693.t3 | cds | g9693.t3.CDS2 | 4718075 | 4718185 |
| chr_1 | g9693 | g9693.t3 | exon | g9693.t3.exon3 | 4718244 | 4719844 |
| chr_1 | g9693 | g9693.t3 | cds | g9693.t3.CDS3 | 4718244 | 4719844 |
| chr_1 | g9693 | g9693.t3 | exon | g9693.t3.exon4 | 4719896 | 4720386 |
| chr_1 | g9693 | g9693.t3 | cds | g9693.t3.CDS4 | 4719896 | 4720385 |
| chr_1 | g9693 | g9693.t3 | TTS | g9693.t3 | NA | NA |
Sequences
>g9693.t3 Gene=g9693 Length=2242
ATGTCAGCAAGTATACTTGTAGATACTCCGGATATTGAGAGTTTGTTATCATTGAATCCA
CGCGTCTTGAGAAAATGCTCTGTATTGTCAACTGTCGAAACAAAAAAGAACAAAAAATTA
TGGAAACGTAATGCTGATAAGTCGGAGGCAACATGTCGTTCATTAAAAAATGACTTTTCT
GATATAAAACATACGACTTTATCAGAACGTGGTGCATTACGTGAAGCTGCAAGGTGTTTG
AAGTGTGCTGATGCACCATGTCAAAAATCTTGTCCAACACAATTGGATATTAAAGCATTT
ATTTCGAGTATTTCAACTAAAAATTACTATGGTGCAGCTAAATTTATTTTCTCTGATAAT
CCATTGGGTTTGACTTGTGGCATGGTTTGTCCAACTAGTGATTTATGTGTTGGTGGATGC
AACTTGGCAGCTGTTGAAGAAGGACCAATTAATATCGGTGGATTGCAACAATTTGCAACT
GAAACTTTTAAACGAATGGGTTTGAGACAAATTTTGAATCCTGATTTGAAACCATTGAAG
CAAAATGCTGATGCTAAAATTGTTTTAATTGGTGGCGGACCAGCTTCACTTTCATGTGCA
ACATTCTTAGGTCGATTGGGTTATAAAAATATTACTGTTTATGAAAAACGTGACTATTTG
GGTGGTTTATCATCATCAGAAATTCCTCAATATCGTTTGCCATTTGATGTTGTCGATTTT
GAAATAAATTTGGTTAAAGATCTTGGTGTAAAATTCGAAACTGGACGAAGTCTTTCAACT
AAAGATTTAACAATTCAAAAATTAATTGATGATGGAACTGCAGCAATTTTTCTTGGTATT
GGTTTACCACAAGCTAAAATAGCTCCAGCTTTTGAAGGTTTAACTGAAGCAAATGGATTT
TTCACTTCAAAAGATTTTCTGCCAAGAGTTGCTGATGGTAGTAAAAGAGGAATGTGCACA
TGTAAAGCATCAAATCTTCCATCATTGAATGGAAATGTTATTGTTCTTGGTGCAGGTGAT
ACTGCTTTTGATTGTGCAACTTCAGCTTTACGTTGCGGTGCTTCGAAAGTTTTTGTAGTT
TTCCGTAAAGGCACAACAAATATTCATGCAGTTCCAGAAGAAGTTGAATTAGCAAGAGAA
GAAAAATGTGAATTTATTCCATTTATGAGTCCAGTTAAAGTCATTACAAAAAATGATCGA
ATTACTCATGTTGAATTTTGTCGTACTGAAAAGGATGAAAATGGAAAATGGATTGAAGAC
CATGATCAAATTGTTCGATTGAAAGCAAATTATGTAATTTCTGCATTTGGTAGTGGACTG
CTTGATGCTGATGTTATTGAAGCTTTAAAGCCAGTACCTTTGAATCCTTGGGGATTGCCT
GAAATTGATGAAAAGACACAACAAACACCATTAAAGAATATTTTCGTTGGTGGTGATCTT
GGTGGATATTCTGGCACAACTGTCGAGTCAGTTAATGATGGAAAAACAGCAGCTTGGTAT
ATGCATTGCTATTTGCAAGAACTTTCATTTGATACTGAGCCAGAATTACCAATGTTTTAT
ACAGAAGTTGATTTAGTTGACATTTCAGTTGAAATGTGTGGTGTTAAATTTGAAAATCCA
TTTGGTCTCGCTTCTGCTCCACCAACAACAAGTATTCAAATGATTCGACGTGCATTCGAA
CAAGGCTGGGCCTTTGCATTAACTAAAACTTTCTGTCTTGATAAAGATTTAGTGACAAAC
GTTTCACCAAGGATTGTTAGAGGAACTACATCAGGTCACAATTATGGTCCAGGACAAGGC
AGCTTTTTGAACATTGAATTGATTTCTGAAAAATGTGCTGATTATTGGCTTCGTGGTGTT
ACTGAATTGCGTAAAGATTTTCCATCAAAAGTTGTCATTGCTTCAATTATGTGTTCATAC
AATGAACAAGATTGGACTGAATTAGCTCAAAAAGCAGAAGCAGCTGGTGCTCAAATACTT
GAATTAAATCTTTCATGTCCTCATGGAATGGGAGAAAGTGGAATGGGTCTTGCATGCGGT
CAAGATCCAAAACTTGTTCATGATATTGCTGTTTGGGTTAGGAAAGCAGTAAAAGTTCCA
TTTTTCATTAAATTGACACCAAATATCACAGAAATTGTTCAAATTGCAAAGGCAGCTTAT
GAAGGCGGTGCTTCAGGTGTAACAGCAATCAATACAATCAGTGGTTTGATGTCAGTTAAT
GCTGATGGTATTGCATGGCCAA
>g9693.t3 Gene=g9693 Length=747
MSASILVDTPDIESLLSLNPRVLRKCSVLSTVETKKNKKLWKRNADKSEATCRSLKNDFS
DIKHTTLSERGALREAARCLKCADAPCQKSCPTQLDIKAFISSISTKNYYGAAKFIFSDN
PLGLTCGMVCPTSDLCVGGCNLAAVEEGPINIGGLQQFATETFKRMGLRQILNPDLKPLK
QNADAKIVLIGGGPASLSCATFLGRLGYKNITVYEKRDYLGGLSSSEIPQYRLPFDVVDF
EINLVKDLGVKFETGRSLSTKDLTIQKLIDDGTAAIFLGIGLPQAKIAPAFEGLTEANGF
FTSKDFLPRVADGSKRGMCTCKASNLPSLNGNVIVLGAGDTAFDCATSALRCGASKVFVV
FRKGTTNIHAVPEEVELAREEKCEFIPFMSPVKVITKNDRITHVEFCRTEKDENGKWIED
HDQIVRLKANYVISAFGSGLLDADVIEALKPVPLNPWGLPEIDEKTQQTPLKNIFVGGDL
GGYSGTTVESVNDGKTAAWYMHCYLQELSFDTEPELPMFYTEVDLVDISVEMCGVKFENP
FGLASAPPTTSIQMIRRAFEQGWAFALTKTFCLDKDLVTNVSPRIVRGTTSGHNYGPGQG
SFLNIELISEKCADYWLRGVTELRKDFPSKVVIASIMCSYNEQDWTELAQKAEAAGAQIL
ELNLSCPHGMGESGMGLACGQDPKLVHDIAVWVRKAVKVPFFIKLTPNITEIVQIAKAAY
EGGASGVTAINTISGLMSVNADGIAWP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g9693.t3 | Gene3D | G3DSA:3.30.70.20 | - | 8 | 26 | 0 |
| 13 | g9693.t3 | Gene3D | G3DSA:1.10.1060.10 | - | 27 | 180 | 0 |
| 14 | g9693.t3 | Gene3D | G3DSA:3.50.50.60 | - | 181 | 527 | 0 |
| 15 | g9693.t3 | Gene3D | G3DSA:3.50.50.60 | - | 285 | 438 | 0 |
| 16 | g9693.t3 | Gene3D | G3DSA:3.20.20.70 | Aldolase class I | 528 | 747 | 0 |
| 4 | g9693.t3 | PANTHER | PTHR43073:SF2 | DIHYDROPYRIMIDINE DEHYDROGENASE [NADP(+)] | 8 | 747 | 0 |
| 5 | g9693.t3 | PANTHER | PTHR43073 | DIHYDROPYRIMIDINE DEHYDROGENASE [NADP(+)] | 8 | 747 | 0 |
| 7 | g9693.t3 | PRINTS | PR00419 | Adrenodoxin reductase family signature | 186 | 208 | 0 |
| 8 | g9693.t3 | PRINTS | PR00419 | Adrenodoxin reductase family signature | 210 | 223 | 0 |
| 6 | g9693.t3 | PRINTS | PR00419 | Adrenodoxin reductase family signature | 333 | 347 | 0 |
| 3 | g9693.t3 | Pfam | PF14691 | Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster | 58 | 166 | 0 |
| 1 | g9693.t3 | Pfam | PF07992 | Pyridine nucleotide-disulphide oxidoreductase | 186 | 481 | 0 |
| 2 | g9693.t3 | Pfam | PF01180 | Dihydroorotate dehydrogenase | 529 | 734 | 0 |
| 11 | g9693.t3 | SUPERFAMILY | SSF46548 | alpha-helical ferredoxin | 10 | 195 | 0 |
| 9 | g9693.t3 | SUPERFAMILY | SSF51971 | Nucleotide-binding domain | 185 | 437 | 0 |
| 10 | g9693.t3 | SUPERFAMILY | SSF51395 | FMN-linked oxidoreductases | 529 | 740 | 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:0016627 | oxidoreductase activity, acting on the CH-CH group of donors | MF |
| GO:0003824 | catalytic activity | MF |
| GO:0055114 | NA | NA |
| GO:0051536 | iron-sulfur cluster binding | MF |
| GO:0005737 | cytoplasm | CC |
| 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.
