General information for g1327.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Decaprenyl-diphosphate synthase subunit 1.
Parent gene
- The parent gene g1327 is located on chr_3: 9725163..9742728 (+ 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 | g1327 | g1327.t5 | isoform | g1327.t5 | 9722292 | 9742728 |
| chr_3 | g1327 | g1327.t5 | exon | g1327.t5.exon1 | 9722292 | 9722438 |
| chr_3 | g1327 | g1327.t5 | cds | g1327.t5.CDS1 | 9722391 | 9722438 |
| chr_3 | g1327 | g1327.t5 | exon | g1327.t5.exon2 | 9723774 | 9723913 |
| chr_3 | g1327 | g1327.t5 | cds | g1327.t5.CDS2 | 9723774 | 9723913 |
| chr_3 | g1327 | g1327.t5 | exon | g1327.t5.exon3 | 9725154 | 9725298 |
| chr_3 | g1327 | g1327.t5 | cds | g1327.t5.CDS3 | 9725154 | 9725298 |
| chr_3 | g1327 | g1327.t5 | exon | g1327.t5.exon4 | 9732616 | 9732705 |
| chr_3 | g1327 | g1327.t5 | cds | g1327.t5.CDS4 | 9732616 | 9732705 |
| chr_3 | g1327 | g1327.t5 | exon | g1327.t5.exon5 | 9740612 | 9740743 |
| chr_3 | g1327 | g1327.t5 | cds | g1327.t5.CDS5 | 9740612 | 9740743 |
| chr_3 | g1327 | g1327.t5 | exon | g1327.t5.exon6 | 9740806 | 9741000 |
| chr_3 | g1327 | g1327.t5 | cds | g1327.t5.CDS6 | 9740806 | 9741000 |
| chr_3 | g1327 | g1327.t5 | exon | g1327.t5.exon7 | 9742507 | 9742728 |
| chr_3 | g1327 | g1327.t5 | cds | g1327.t5.CDS7 | 9742507 | 9742728 |
| chr_3 | g1327 | g1327.t5 | TTS | g1327.t5 | 9742739 | 9742739 |
| chr_3 | g1327 | g1327.t5 | TSS | g1327.t5 | NA | NA |
Sequences
>g1327.t5 Gene=g1327 Length=1071
GCATCATCAACCTCTATACCACAACACAGTAGAGATTATAGCTCCGTACATACACAACAA
CCAGCCGGTCCAATCAGGGAATATAAAATTGATCCATACATGTTATTAGAAGACGAACTT
AAATATATTTTCGAGGACATTCGACAGGAATTACATCAAGGAACTAATCAAAAGGAACTC
ATACAGATTGCCGAATACTATTTCGATGGTCAAGGTAAAGCACTCCGTCCTATGGTGACA
CTATTGATGGGAAAAGCAATAAATTATCACATGTACAGAGAAAACAATCCACGTACAGTT
GATGCTCAAAGAAAGATTGCCATGATAGCAGAAATGATTCACTCAGCAAGTTTAATTCAC
GATGATGTCATCGATCAATCATTCTCTAGAAGAGGAAAACCAAGCGTGAACGTTCTATGG
AACCATAAAAAAGTAACACAAGCTGGTGATTATGTACTTGCAATTGCATCAATTATGCTT
TCACGTCTGAAACACGATGAAGTCACCTTAATGCTCAGTGCGGTCTTGAATGATTTAGTA
CAAGGAGAATTCATGCAACTGGGTGCTAAAGAAACAGAAAATGAACGCTTCTCGCACTAT
TTTACAAAAACCTACAGAAAAACAGCATCACTTATCGCAAATGCCTGCAAGGGTTCTGCA
ACAATAGCTGGAGCTGATGCACCGATAGTCGAGACTGCTTTCCTTTATGGCAAAAATCTT
GGGTTAGCCTTCCAATTCGTTGATGACTTGTTGGACTTTGTGTCGTCATCTGAAACGATG
GGTAAACCAGCAGCAGCAGATTTAAAACTTGGTCTAGCAACAGCACCTGTTCTATTTGCC
TGCGAAAAGTACCCTGAATTGAATCCAATGATCATGAGACGTTTTAAGGAGCCTGGTGAT
GTTGAAAAGGCGTTTGAGTTAGTACATAAATCACAAGGACTTGAACAAACACGCTTTCTG
GCCCGAAAACACTGCCTTGAAGCCATTAAATTAGCAAACAAGTTAGCTGAATCACCATAC
CAAAAGGGCCTTACAGATATAATGGATTTGGTACTAAATCGAATGAAATAA
>g1327.t5 Gene=g1327 Length=323
MLLEDELKYIFEDIRQELHQGTNQKELIQIAEYYFDGQGKALRPMVTLLMGKAINYHMYR
ENNPRTVDAQRKIAMIAEMIHSASLIHDDVIDQSFSRRGKPSVNVLWNHKKVTQAGDYVL
AIASIMLSRLKHDEVTLMLSAVLNDLVQGEFMQLGAKETENERFSHYFTKTYRKTASLIA
NACKGSATIAGADAPIVETAFLYGKNLGLAFQFVDDLLDFVSSSETMGKPAAADLKLGLA
TAPVLFACEKYPELNPMIMRRFKEPGDVEKAFELVHKSQGLEQTRFLARKHCLEAIKLAN
KLAESPYQKGLTDIMDLVLNRMK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g1327.t5 | CDD | cd00685 | Trans_IPPS_HT | 22 | 321 | 1.22395E-78 |
| 6 | g1327.t5 | Gene3D | G3DSA:1.10.600.10 | Farnesyl Diphosphate Synthase | 1 | 323 | 8.0E-103 |
| 2 | g1327.t5 | PANTHER | PTHR12001:SF69 | DECAPRENYL-DIPHOSPHATE SYNTHASE SUBUNIT 1 | 2 | 323 | 2.6E-122 |
| 3 | g1327.t5 | PANTHER | PTHR12001 | GERANYLGERANYL PYROPHOSPHATE SYNTHASE | 2 | 323 | 2.6E-122 |
| 1 | g1327.t5 | Pfam | PF00348 | Polyprenyl synthetase | 25 | 275 | 1.3E-67 |
| 5 | g1327.t5 | ProSitePatterns | PS00723 | Polyprenyl synthases signature 1. | 85 | 99 | - |
| 8 | g1327.t5 | SFLD | SFLDS00005 | Isoprenoid Synthase Type I | 32 | 320 | 1.1E-38 |
| 4 | g1327.t5 | SUPERFAMILY | SSF48576 | Terpenoid synthases | 5 | 322 | 3.5E-75 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
## Warning: Removed 1 row(s) containing missing values (geom_path).
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0008299 | isoprenoid biosynthetic process | BP |
KEGG
Orthology
- This transcript has been annotated with K12504 (decaprenyl-diphosphate synthase subunit 1)
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.
