General information for g17251.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Trans-1-2-dihydrobenzene-1,2-diol dehydrogenase.
Parent gene
- The parent gene g17251 is located on chr_4: 12946246..12947879 (- 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_4 | g17251 | g17251.t3 | isoform | g17251.t3 | 12945823 | 12947879 |
| chr_4 | g17251 | g17251.t3 | exon | g17251.t3.exon1 | 12945823 | 12946029 |
| chr_4 | g17251 | g17251.t3 | exon | g17251.t3.exon2 | 12946084 | 12946503 |
| chr_4 | g17251 | g17251.t3 | cds | g17251.t3.CDS1 | 12946246 | 12946503 |
| chr_4 | g17251 | g17251.t3 | exon | g17251.t3.exon3 | 12946569 | 12946815 |
| chr_4 | g17251 | g17251.t3 | cds | g17251.t3.CDS2 | 12946569 | 12946815 |
| chr_4 | g17251 | g17251.t3 | exon | g17251.t3.exon4 | 12946876 | 12947170 |
| chr_4 | g17251 | g17251.t3 | cds | g17251.t3.CDS3 | 12946876 | 12947170 |
| chr_4 | g17251 | g17251.t3 | exon | g17251.t3.exon5 | 12947672 | 12947879 |
| chr_4 | g17251 | g17251.t3 | cds | g17251.t3.CDS4 | 12947672 | 12947879 |
| chr_4 | g17251 | g17251.t3 | TSS | g17251.t3 | 12947946 | 12947946 |
| chr_4 | g17251 | g17251.t3 | TTS | g17251.t3 | NA | NA |
Sequences
>g17251.t3 Gene=g17251 Length=1377
ATGTCTAAACCTTTACGTTGGGGTATTGTATCAGCTGGCAAAATCGCAAATGACTTTTGT
GCAGCTTTGTCAACATTTTCAAATGAAGAACATCAAGTTGTTGCAGTTGCAGCTCGCAAA
GAAGCTGATGCAAAAGAATTTGCCGAAACTTTTAACATTCCAAAATATTATGAAGGATAT
GAAAAATTGGCTAATGACAATGAAGTTGATGCTGTCTACATTGGCTCAATAAATACATGT
CATCTAGAAGACAGTATCATGATGCTCGATGCAGGCAAGCCAGTTTTATGTGAGAAACCT
TTTGCATTGAATGAAAAACAATCTGTTGAAATTTTTAATCGTGCAAAGGAGAAGAAACTT
TTCTGTATGGAAGCAGTTTGGTCACGATTTTTACCATCATATGAATACATGAGACATCGT
CTTGATAATAATGATTTTGGTGAAATCACAGAAGTTGAAATTGAATATGGAAAGGAAAAA
CTTGGAAAAATGGAAAGAGTTGTCAAAAAAGATCTTGGCGGTAGCATGTTGTTGGACATT
GGAAATTATGCGATTCAATTTGCTCAATTTGTTTTCCGCTCATATCCGACATCAATTAAA
GCAACTGGCAAATTGAATGATGATGGTGTTGATGTAGAAGCAGAAATTGAATTGAAATAT
TTAAATGGTGGCGTTGCTAAAATTAAGACTAGTGCCATAAACAATCTTAAAAATCAAGCT
AATATTTATGGCAGTAAAGGTTCAATGACTGTCGATCAATTTTGGGCTTGTACTTATTTG
ATCGACATTGATGGACATCCAAAAGAATGGAAGCTACCAGAGCCAAAGCAAGGCGAGTTT
GTATTTAATAACAGAGCTGGTTTAAGATTCCAAGCAGAAGAAACCAGAAGATGCATTAAT
GAAGGAAAACTTGAAAGTGATCTCATGCCTCAAAAGGAAACAATTGAAATTGCTCGCATT
CGTGATGAAATTCGCAAACAAATTGGTGTCAGATATGATGAAGATTAAAATGGATAAAAA
TTCTTTATTTTTCATAAACATCGATTAAATTATTTTTAAGTTTCTTAATTTTTTAAATTA
TAAAATTGATTCATGGTCAGTTCCGAAAAATTTTCAATAAATCACATGAAAATCTATGTA
CAAACTTGGAAAATTGTCAACTGATTAAATAACTTAAAGTTCATTGAATTGAAATTTATA
AAAATAGATTCTGAAAGAAAGAAAACAATTTATAAATAATTGCAAAATAAATCGGTTGGT
ATTTTTATTTATTTGATCTTTGTACTTTTTTTTTGATTACTCATATTTTCAATGTAAATA
AAATAATTTTTTTTCATTCAGTGATTTGTTTTCATTAAAATAAGACGTGAAATAAAA
>g17251.t3 Gene=g17251 Length=335
MSKPLRWGIVSAGKIANDFCAALSTFSNEEHQVVAVAARKEADAKEFAETFNIPKYYEGY
EKLANDNEVDAVYIGSINTCHLEDSIMMLDAGKPVLCEKPFALNEKQSVEIFNRAKEKKL
FCMEAVWSRFLPSYEYMRHRLDNNDFGEITEVEIEYGKEKLGKMERVVKKDLGGSMLLDI
GNYAIQFAQFVFRSYPTSIKATGKLNDDGVDVEAEIELKYLNGGVAKIKTSAINNLKNQA
NIYGSKGSMTVDQFWACTYLIDIDGHPKEWKLPEPKQGEFVFNNRAGLRFQAEETRRCIN
EGKLESDLMPQKETIEIARIRDEIRKQIGVRYDED
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g17251.t3 | Gene3D | G3DSA:3.40.50.720 | - | 4 | 124 | 0.0e+00 |
| 8 | g17251.t3 | Gene3D | G3DSA:3.30.360.10 | Dihydrodipicolinate Reductase; domain 2 | 125 | 335 | 0.0e+00 |
| 3 | g17251.t3 | PANTHER | PTHR22604 | OXIDOREDUCTASES | 2 | 334 | 0.0e+00 |
| 4 | g17251.t3 | PANTHER | PTHR22604:SF105 | TRANS-1,2-DIHYDROBENZENE-1,2-DIOL DEHYDROGENASE | 2 | 334 | 0.0e+00 |
| 1 | g17251.t3 | Pfam | PF01408 | Oxidoreductase family, NAD-binding Rossmann fold | 5 | 123 | 0.0e+00 |
| 2 | g17251.t3 | Pfam | PF02894 | Oxidoreductase family, C-terminal alpha/beta domain | 138 | 254 | 3.3e-05 |
| 5 | g17251.t3 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 2 | 156 | 0.0e+00 |
| 6 | g17251.t3 | SUPERFAMILY | SSF55347 | Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain | 131 | 300 | 0.0e+00 |
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:0016491 | oxidoreductase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K00078 (dihydrodiol dehydrogenase / D-xylose 1-dehydrogenase (NADP))
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.
