General information for g2521.t2
Yuki Yoshida
6/2/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Farnesol dehydrogenase.
Parent gene
- The parent gene g2521 is located on chr_3: 18426939..18427842 (+ 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_3 | g2521 | g2521.t2 | TSS | g2521.t2 | 18426846 | 18426846 |
| chr_3 | g2521 | g2521.t2 | isoform | g2521.t2 | 18426939 | 18427842 |
| chr_3 | g2521 | g2521.t2 | exon | g2521.t2.exon1 | 18426939 | 18427594 |
| chr_3 | g2521 | g2521.t2 | cds | g2521.t2.CDS1 | 18427406 | 18427594 |
| chr_3 | g2521 | g2521.t2 | exon | g2521.t2.exon2 | 18427660 | 18427842 |
| chr_3 | g2521 | g2521.t2 | cds | g2521.t2.CDS2 | 18427660 | 18427842 |
| chr_3 | g2521 | g2521.t2 | TTS | g2521.t2 | 18428018 | 18428018 |
Sequences
>g2521.t2 Gene=g2521 Length=839
ATGGAAGAAGGCATGAAAAGATGGGAAGGAAAGGTGGCAATTGTCACTGGAGCATCACAG
GGTATTGGCTCGGCAATAGCTGTTGCATTAGCTAAGAGTGGGATGATCGTTTGTGGACTT
GCAAAACGGTGAGAACTCGATACATTGTAACTAAATGTCACTTAAAAAGCATTTCGTTTC
TGCTCATTAAACACAGAAAAGATAAAATAGAAGCACTGAGAGTTGGATTGCTTAAAATAA
AAGGACAGTTGAACGCAGTCGAGTGCGATATAGGAAATGAGCAGAGTGTGCAAAGTGTTT
TTGTTTGGATAGAAAAAACTTTCGGTGGAGTCGATCTGGTTGTAAATAACGCAGGAATTT
TTACAAAAGCACTCTTTCTTGACGACAATAATACTAAAGAACTTAAAAATGTTATTGATA
ATGAAATTATGGGAAATATTTACATAACTCGCCAGGCGATTAAATCTATGCAAGCACGTG
ATGTTAATGGACATATTATCAACATATGTAGTATTTTTGGACATAATGTCAATCAAGCTG
TACCAGGAAACAAGCCAATGAATTCACTCTATCCACCAGTGAAGCATGCAGTTAAAGCCA
TGACTGAGTGCATTCGTCAAGAGCTTACTTATTTGGCGACACAAATTAAAATCACTTCAA
TCAGTCCAGGTCTTTGTGAAGGTGATATTATTTCAACATGCACTGATAATGAACTCGTGT
CATTGATGCCAAAACTTAAACCAGAGGATGTTGCTAATGCAATTCTTTATTGCATCACAC
TTCCTGATGGATGCAATGTTCATGAGATGGTACTCAAACCAATGGGAGAATTTGTATAA
>g2521.t2 Gene=g2521 Length=123
MQARDVNGHIINICSIFGHNVNQAVPGNKPMNSLYPPVKHAVKAMTECIRQELTYLATQI
KITSISPGLCEGDIISTCTDNELVSLMPKLKPEDVANAILYCITLPDGCNVHEMVLKPMG
EFV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g2521.t2 | Gene3D | G3DSA:3.40.50.720 | - | 1 | 122 | 0e+00 |
| 2 | g2521.t2 | PANTHER | PTHR43115 | DEHYDROGENASE/REDUCTASE SDR FAMILY MEMBER 11 | 1 | 121 | 0e+00 |
| 5 | g2521.t2 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 2 | 18 | 0e+00 |
| 4 | g2521.t2 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 35 | 54 | 0e+00 |
| 3 | g2521.t2 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 58 | 75 | 0e+00 |
| 6 | g2521.t2 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 85 | 105 | 0e+00 |
| 1 | g2521.t2 | Pfam | PF00106 | short chain dehydrogenase | 5 | 77 | 4e-07 |
| 7 | g2521.t2 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 1 | 116 | 0e+00 |
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 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.
