General information for g8535.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Decaprenyl-diphosphate synthase subunit 2.
Parent gene
- The parent gene g8535 is located on chr_2: 31148651..31149264 (+ 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 | g8535 | g8535.t4 | isoform | g8535.t4 | 31146676 | 31148026 |
| chr_2 | g8535 | g8535.t4 | TSS | g8535.t4 | 31146676 | 31146676 |
| chr_2 | g8535 | g8535.t4 | exon | g8535.t4.exon1 | 31146676 | 31146932 |
| chr_2 | g8535 | g8535.t4 | exon | g8535.t4.exon2 | 31146997 | 31147291 |
| chr_2 | g8535 | g8535.t4 | cds | g8535.t4.CDS1 | 31147011 | 31147291 |
| chr_2 | g8535 | g8535.t4 | exon | g8535.t4.exon3 | 31147607 | 31147936 |
| chr_2 | g8535 | g8535.t4 | cds | g8535.t4.CDS2 | 31147607 | 31147936 |
| chr_2 | g8535 | g8535.t4 | exon | g8535.t4.exon4 | 31147991 | 31148026 |
| chr_2 | g8535 | g8535.t4 | cds | g8535.t4.CDS3 | 31147991 | 31148024 |
| chr_2 | g8535 | g8535.t4 | TTS | g8535.t4 | NA | NA |
Sequences
>g8535.t4 Gene=g8535 Length=918
CAGTTATAGACAAGCATCGGATGTGTTCAGACCTCATAAGAAACAATAAAATTGATAAAA
AGTTAAGAAAACGCAAAGAATTGATACCAAATGATTAGAACAAATTGCACTTTGAAATTC
TTGTGAAATTGAAATAATAAATCGCAATAAATAATAATAACGGGAAAGAGAAAAGAAAAT
TCATTACATGAATAGTTGAATTAGACAAATATATTTAAAAGAAGCATAAGAATTAAGTTC
TCGTTGAAGTAGGTCGAAAACAAAACGGATCATGTCTTTGAGTCGGTTATATGCAACCAA
AGAGCTATTGAAGAAAATAACTTTTCTTAACGCATCACGAGCAATCACATCGGCATCAAT
TTTATCGAGCAATGCTCCAAAACCAATTCAAAAACATGACTTTAACAGAGCTGTTAGTGA
GGCAGAGAAAATTGTTGGCTATCCTACGTCTTTCTTGAGTCTTCGTTGGCTATTGAGTGA
TGAAATTGCAAATGTTGCATTACATTTAAGAAAATTAGTAGGCAGCAATCATCCCTTATT
AAAAACCGCAAAAAATTTGATTTATGATGGCAAATCAAATATGCAAGCATGGGGATTGAT
AGTGTTACTTATTTCAAAAGCAGCTGGACAATCAAATGATTTGTTAGAATTAGAACAGGA
TAAAAGTGCAGGAGTTTTACATTCGCAAAGAGCTCTCGCTGAAATAACAGAAATGATTCG
AACTTCACATTTGATTCATCAGGGAATGGTTAATTTGCAGACGCTTAAAAAATCTGGCAA
TGAATTGGCATCTGATTCTGAGCTCATTTTTGGGAATAAAATTGCCCTTTTGGGTGGTGA
TTATTTACTTGGGAATGCTTGCTTGCAACTTGCTGGATTAAGAAATCAAGAACTAATTGA
GTTAATTTCATCAGCGGT
>g8535.t4 Gene=g8535 Length=215
MSLSRLYATKELLKKITFLNASRAITSASILSSNAPKPIQKHDFNRAVSEAEKIVGYPTS
FLSLRWLLSDEIANVALHLRKLVGSNHPLLKTAKNLIYDGKSNMQAWGLIVLLISKAAGQ
SNDLLELEQDKSAGVLHSQRALAEITEMIRTSHLIHQGMVNLQTLKKSGNELASDSELIF
GNKIALLGGDYLLGNACLQLAGLRNQELIELISSA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g8535.t4 | Gene3D | G3DSA:1.10.600.10 | Farnesyl Diphosphate Synthase | 62 | 215 | 0.0e+00 |
| 2 | g8535.t4 | PANTHER | PTHR12001:SF55 | DECAPRENYL-DIPHOSPHATE SYNTHASE SUBUNIT 2 | 30 | 215 | 0.0e+00 |
| 3 | g8535.t4 | PANTHER | PTHR12001 | GERANYLGERANYL PYROPHOSPHATE SYNTHASE | 30 | 215 | 0.0e+00 |
| 1 | g8535.t4 | Pfam | PF00348 | Polyprenyl synthetase | 106 | 214 | 4.2e-06 |
| 4 | g8535.t4 | SUPERFAMILY | SSF48576 | Terpenoid synthases | 53 | 214 | 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:0008299 | isoprenoid biosynthetic process | BP |
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.
