General information for g627.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 g627 is located on chr_3: 4625020..4625820 (+ 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 | g627 | g627.t1 | isoform | g627.t1 | 4625020 | 4625820 |
| chr_3 | g627 | g627.t1 | exon | g627.t1.exon1 | 4625020 | 4625820 |
| chr_3 | g627 | g627.t1 | cds | g627.t1.CDS1 | 4625020 | 4625820 |
| chr_3 | g627 | g627.t1 | TTS | g627.t1 | 4626823 | 4626823 |
| chr_3 | g627 | g627.t1 | TSS | g627.t1 | NA | NA |
Sequences
>g627.t1 Gene=g627 Length=801
ATGGAAAAGTGGCAAAATAAAATTGCTGTTATAACTGGAGCTTCTTCTGGAATTGGTGCA
GCAGTTGCTAAAGATTTAGCCAAAATTGGCCTTACTGTTATTGGTCTCGCAAGACGAAGT
GAAAAAGTTGAAAAACTTTCAAGTAAACTTGGAAATGATTGCAGTGGAAAAATTATCGCT
TTTAAATGCGATGTTTCAAGTTTAGACTCGATTAAAGCTGCATTTAAATGGATTCAAGAA
AATTTTTCATGTATTCATATTTTGGTCAATAATGCTGGAAATGGTTTAATGGGAAGTATT
TTAGATGCAAGTGACCAAATGACATCAGCAATTCAAAAAACAATTGATGTCAATTTCTCA
GGTTTAGTTCATTGCACTCGAGAAGCTGTGCCATTAATGAATGATTTTGGTTTGATTATA
AATGTTGGCTCAATTTTCGGTCATGAAGTTCCTTGTCCGAATCAATCAAATTTATATCCA
GCAACAAAATTTGCAGTCAAAGCAATGTCAGAAATTTTTCGTCAAGAATTAATTGTGATT
GGAAATGAGAAAATTCGAGTGACAAATTTAAGTCCTGGTTGTGTGCAGACAGAAATTTTT
AAACAAGCTGGAATCGTTGATACTGAAACTTTTTTCAAATTGTTTCCATTTTTGAAACCT
GAAGATGTCTCAGCTGCTATTTTGTATATTTTAAGCACACCTTACGATGTCAATATCACA
GAATTGACTATAAGACCTGTTGGGGAATATTTGGGAAACAAAAATATCGAGAAAATTTCA
AATTTACGAGATTTTAATTAG
>g627.t1 Gene=g627 Length=266
MEKWQNKIAVITGASSGIGAAVAKDLAKIGLTVIGLARRSEKVEKLSSKLGNDCSGKIIA
FKCDVSSLDSIKAAFKWIQENFSCIHILVNNAGNGLMGSILDASDQMTSAIQKTIDVNFS
GLVHCTREAVPLMNDFGLIINVGSIFGHEVPCPNQSNLYPATKFAVKAMSEIFRQELIVI
GNEKIRVTNLSPGCVQTEIFKQAGIVDTETFFKLFPFLKPEDVSAAILYILSTPYDVNIT
ELTIRPVGEYLGNKNIEKISNLRDFN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g627.t1 | Gene3D | G3DSA:3.40.50.720 | - | 7 | 254 | 4.1E-56 |
| 2 | g627.t1 | PANTHER | PTHR43115 | DEHYDROGENASE/REDUCTASE SDR FAMILY MEMBER 11 | 1 | 254 | 1.7E-84 |
| 10 | g627.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 8 | 25 | 1.2E-24 |
| 5 | g627.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 83 | 94 | 1.3E-6 |
| 11 | g627.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 83 | 94 | 1.2E-24 |
| 9 | g627.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 131 | 147 | 1.2E-24 |
| 4 | g627.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 137 | 145 | 1.3E-6 |
| 3 | g627.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 159 | 178 | 1.3E-6 |
| 7 | g627.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 159 | 178 | 1.2E-24 |
| 8 | g627.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 183 | 200 | 1.2E-24 |
| 6 | g627.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 213 | 233 | 1.2E-24 |
| 1 | g627.t1 | Pfam | PF00106 | short chain dehydrogenase | 7 | 202 | 5.2E-46 |
| 15 | g627.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 23 | - |
| 16 | g627.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 7 | - |
| 17 | g627.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 8 | 18 | - |
| 18 | g627.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 19 | 23 | - |
| 14 | g627.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 24 | 266 | - |
| 12 | g627.t1 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 2 | 240 | 1.12E-55 |
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 K06123 (1-acylglycerone phosphate reductase)
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. There were no conditions that were differentially expressed