General information for g8740.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Farnesol dehydrogenase.
Parent gene
- The parent gene g8740 is located on chr_2: 32741837..32742578 (- 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 | g8740 | g8740.t1 | TTS | g8740.t1 | 32741794 | 32741794 |
| chr_2 | g8740 | g8740.t1 | isoform | g8740.t1 | 32741837 | 32742578 |
| chr_2 | g8740 | g8740.t1 | exon | g8740.t1.exon1 | 32741837 | 32742417 |
| chr_2 | g8740 | g8740.t1 | cds | g8740.t1.CDS1 | 32741837 | 32742417 |
| chr_2 | g8740 | g8740.t1 | exon | g8740.t1.exon2 | 32742491 | 32742578 |
| chr_2 | g8740 | g8740.t1 | cds | g8740.t1.CDS2 | 32742491 | 32742578 |
| chr_2 | g8740 | g8740.t1 | TSS | g8740.t1 | 32742681 | 32742681 |
Sequences
>g8740.t1 Gene=g8740 Length=669
ATGGATAAGTGGACAGGAAAAGTAGCAGTAATTACCGGTGGCTCATCAGGCATGGGTGCT
GCAATTCTTTCATTATTCATCAAAAATGTTTTCAATCGCAAATGTGATGTTGCAAATTTG
ACATCAATTAAAGAAAATTTCAATTGGATTGAGGAAAATTTTGGTGTTGTTCATATTCTT
GTCAATAATGCTGGAATTTTGAGAAGTGGAAAAGTTCTTGATGAAAATTCAATTGAAATT
TTGAATAAATTGATTGATGTAAATTTTACTGCTGTTGTCCACTGCACTCGTGAAGCTGTA
AAATTAATGAAAAAGTCAGAAGACTATTGCATGATTATCAACATTTGCTCAATTGCTGGC
CATAAAATTCCATTTCCAAATGATTTTAACATTTATCCAGCTACAAAATTTGCTGTTAAA
GCTTTTTCTGAAATTGTAAGACAAGAATTAGTTGTTGAAGAATGTGACAAAATTCGTGTG
ACTAATTTAAGCCCTGGATCAGTTAGAACTAATATTTTAGATAACTCTGGTTTTCCTCAA
TTCGATGAATTTATTGAACAATATAAATTGAAATTTATTGAACCAGAAGACATTGCTGAA
GCTGTTTGTTACATTTTAAGCACTCAAATTAATGTCAATGTTAGTGAATTGACAATTATG
AGTGCTTGA
>g8740.t1 Gene=g8740 Length=222
MDKWTGKVAVITGGSSGMGAAILSLFIKNVFNRKCDVANLTSIKENFNWIEENFGVVHIL
VNNAGILRSGKVLDENSIEILNKLIDVNFTAVVHCTREAVKLMKKSEDYCMIINICSIAG
HKIPFPNDFNIYPATKFAVKAFSEIVRQELVVEECDKIRVTNLSPGSVRTNILDNSGFPQ
FDEFIEQYKLKFIEPEDIAEAVCYILSTQINVNVSELTIMSA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g8740.t1 | Gene3D | G3DSA:3.40.50.720 | - | 1 | 216 | 1.5E-45 |
| 3 | g8740.t1 | PANTHER | PTHR43115 | DEHYDROGENASE/REDUCTASE SDR FAMILY MEMBER 11 | 1 | 22 | 5.8E-56 |
| 2 | g8740.t1 | PANTHER | PTHR43115 | DEHYDROGENASE/REDUCTASE SDR FAMILY MEMBER 11 | 34 | 219 | 5.8E-56 |
| 10 | g8740.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 8 | 25 | 2.4E-25 |
| 5 | g8740.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 55 | 66 | 4.5E-8 |
| 8 | g8740.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 55 | 66 | 2.4E-25 |
| 9 | g8740.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 104 | 120 | 2.4E-25 |
| 4 | g8740.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 110 | 118 | 4.5E-8 |
| 6 | g8740.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 132 | 151 | 4.5E-8 |
| 12 | g8740.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 132 | 151 | 2.4E-25 |
| 11 | g8740.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 156 | 173 | 2.4E-25 |
| 7 | g8740.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 188 | 208 | 2.4E-25 |
| 1 | g8740.t1 | Pfam | PF00106 | short chain dehydrogenase | 30 | 175 | 3.4E-30 |
| 15 | g8740.t1 | ProSitePatterns | PS00061 | Short-chain dehydrogenases/reductases family signature. | 119 | 147 | - |
| 14 | g8740.t1 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 1 | 209 | 9.26E-44 |
| 13 | g8740.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 10 | 32 | - |
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.
