General information for g12776.t1
Yuki Yoshida
6/2/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Farnesol dehydrogenase.
Parent gene
- The parent gene g12776 is located on chr_1: 26013336..26014100 (- 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 | g12776 | g12776.t1 | TTS | g12776.t1 | 26012902 | 26012902 |
| chr_1 | g12776 | g12776.t1 | isoform | g12776.t1 | 26013336 | 26014100 |
| chr_1 | g12776 | g12776.t1 | exon | g12776.t1.exon1 | 26013336 | 26014100 |
| chr_1 | g12776 | g12776.t1 | cds | g12776.t1.CDS1 | 26013336 | 26014100 |
| chr_1 | g12776 | g12776.t1 | TSS | g12776.t1 | 26014129 | 26014129 |
Sequences
>g12776.t1 Gene=g12776 Length=765
ATGGAAAAGTGGCAAGGAAAATTTGCTGTTGTAACTGGTGCTTCTGCGGGCATTGGTGCA
AGTATAATTAAAGATTTTGCTCTAAATGGCATCAATGTAATCGCCTTGGCAAGAAGAGTT
GAAAAAATTGAAGAATTAATTGCAGAATTTGGTGAATCTAATGGCAAAATTTTTCCTTAT
AAATGTGATGTTTCTGATTTGAGTTCAATAAAAGAAGCTTTCAATTGGATTGAAGAAAGT
TTTAGCACTATAAATATTTTGGTTAATAATGCTGGAATTGTTATTAAAAGTCGTTCAATC
AGTGAAGATGAAGAAGTTACTGAAATTATTGACAAAACAATTGATACAAATTTCAAAGGC
ATTGTTCACTGCTCACGTGAAGCAGTAAGATTGATGAAGAAAAATGAAGAATCTTCATTG
ATCGTTAACATCAATTCAATCCTTGGCCATAAATTGTCAAATTATGATTCTCATATGAAC
GTTTATCCAGCAACTAAATTTGCTGTCACTGCTTATACTGAAGTTCTACGTCAAGAGTTG
ATTCATAGTGGCTACAAACATATACGTGTCAGCAGTATCAGTCCAGGCTCTGTTAAAACT
GATGCAGTCATTGCAGGAAAATTTGTTGAGACTCATGATGAGTTTTACGCCAATATAAAT
TCTTTGCAACCTGGAGACATTACCAATACAATTTTATTCTTACTTGAGTGCCCACCAAGT
GTCAACATCACTGAAATTTCTATAAGACCAACTGGTGAATTTTAA
>g12776.t1 Gene=g12776 Length=254
MEKWQGKFAVVTGASAGIGASIIKDFALNGINVIALARRVEKIEELIAEFGESNGKIFPY
KCDVSDLSSIKEAFNWIEESFSTINILVNNAGIVIKSRSISEDEEVTEIIDKTIDTNFKG
IVHCSREAVRLMKKNEESSLIVNINSILGHKLSNYDSHMNVYPATKFAVTAYTEVLRQEL
IHSGYKHIRVSSISPGSVKTDAVIAGKFVETHDEFYANINSLQPGDITNTILFLLECPPS
VNITEISIRPTGEF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g12776.t1 | Gene3D | G3DSA:3.40.50.720 | - | 1 | 253 | 0 |
| 2 | g12776.t1 | PANTHER | PTHR43115 | DEHYDROGENASE/REDUCTASE SDR FAMILY MEMBER 11 | 1 | 253 | 0 |
| 3 | g12776.t1 | PANTHER | PTHR43115:SF4 | DEHYDROGENASE/REDUCTASE SDR FAMILY MEMBER 11 | 1 | 253 | 0 |
| 9 | g12776.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 8 | 25 | 0 |
| 6 | g12776.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 82 | 93 | 0 |
| 11 | g12776.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 82 | 93 | 0 |
| 8 | g12776.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 133 | 149 | 0 |
| 4 | g12776.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 139 | 147 | 0 |
| 5 | g12776.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 162 | 181 | 0 |
| 10 | g12776.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 162 | 181 | 0 |
| 7 | g12776.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 186 | 203 | 0 |
| 1 | g12776.t1 | Pfam | PF00106 | short chain dehydrogenase | 7 | 202 | 0 |
| 12 | g12776.t1 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 4 | 252 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
## [1] "No matching GO terms"KEGG
Orthology
- This transcript has been annotated with K22970 (17beta-estradiol 17-dehydrogenase / 3beta-hydroxysteroid 3-dehydrogenase)
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.
