General information for g9195.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Dehydrodolichyl diphosphate synthase complex subunit DHDDS.
Parent gene
- The parent gene g9195 is located on chr_1: 702080..703470 (- 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 | g9195 | g9195.t3 | TTS | g9195.t3 | 702006 | 702006 |
| chr_1 | g9195 | g9195.t3 | isoform | g9195.t3 | 702080 | 703470 |
| chr_1 | g9195 | g9195.t3 | exon | g9195.t3.exon1 | 702080 | 702306 |
| chr_1 | g9195 | g9195.t3 | cds | g9195.t3.CDS1 | 702205 | 702306 |
| chr_1 | g9195 | g9195.t3 | exon | g9195.t3.exon2 | 702742 | 703198 |
| chr_1 | g9195 | g9195.t3 | cds | g9195.t3.CDS2 | 702742 | 703198 |
| chr_1 | g9195 | g9195.t3 | exon | g9195.t3.exon3 | 703274 | 703470 |
| chr_1 | g9195 | g9195.t3 | cds | g9195.t3.CDS3 | 703274 | 703470 |
| chr_1 | g9195 | g9195.t3 | TSS | g9195.t3 | NA | NA |
Sequences
>g9195.t3 Gene=g9195 Length=881
ATGAATCAGTATAAGAATAATGAGACAAAATTAAGTTTTTTCGAAAATTTAGCAATTAAA
ATTATTAAGCAAGGACCTATTCCAAAGCATATAGCATTTATTATGGATGGCAATCGTCGT
TGGGCAACAAATTTTAATTTGAATAAATCAGAAGGACATGAATTTGGCTCTGAAAAACTC
TCAAAGATTCTAAAATGGTGTCCAAAAATTGGCATTAAAGAAGTTACAGTTTATGCATTT
AGTATTGAAAATTTTAAAAGGTCTCAGGATGAAGTTAATGCCATTATGAAGTTATTTATT
CGGAAATTACTTGAAAAGGAGCAAGAATTGCATGAGAAAGGCATAAAAGTAAAAGTAATA
GGAAATTTAGACATGCTTCCAAATGATGTTCAAAAAGTTGTTGCTGATGCGATGCTTTCA
ACAAAAGACAATAGTAAATTAAATCTAAATATTGCATTCGCATACTCATCACGAGAAGAA
ATTACTAATTCGATAAAAACAATTGTTGAAGGTGTTGAGAATAATGAATTGATTTTAGAA
GATTTAGATAATGTACTAATTGATGAATGTTTGTATACAAATCAATCTTCACCAGTTGAC
TTACTCGTAAGAACATCTGGAGAAATGCGATTTAGTGATTTTCTTTTGTGGCAGTGTTTT
ATTTCACTACGTCTTTATGGCCCGATTTTACTCTATGGCACTTACTTGCTGCAGTGTTTT
ACTATCAGAGAAACTACACACAAGCAAAAGCTTTAAAAGAGCATTATAACCAAACTCGAC
CAGCTATTACTAATAATCCACGAGTTGATAAATTTTTGGCTAATCTCGAAGAAAAAAGAT
GCACGAAGTTAGTTGAGATGAATCGATTGATAAAATCATAA
>g9195.t3 Gene=g9195 Length=251
MNQYKNNETKLSFFENLAIKIIKQGPIPKHIAFIMDGNRRWATNFNLNKSEGHEFGSEKL
SKILKWCPKIGIKEVTVYAFSIENFKRSQDEVNAIMKLFIRKLLEKEQELHEKGIKVKVI
GNLDMLPNDVQKVVADAMLSTKDNSKLNLNIAFAYSSREEITNSIKTIVEGVENNELILE
DLDNVLIDECLYTNQSSPVDLLVRTSGEMRFSDFLLWQCFISLRLYGPILLYGTYLLQCF
TIRETTHKQKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g9195.t3 | CDD | cd00475 | Cis_IPPS | 30 | 219 | 8.14481E-107 |
| 6 | g9195.t3 | Gene3D | G3DSA:3.40.1180.10 | - | 2 | 226 | 2.2E-84 |
| 4 | g9195.t3 | Hamap | MF_01139 | Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) [uppS]. | 27 | 249 | 27.11672 |
| 2 | g9195.t3 | PANTHER | PTHR10291 | DEHYDRODOLICHYL DIPHOSPHATE SYNTHASE FAMILY MEMBER | 8 | 220 | 1.5E-80 |
| 3 | g9195.t3 | PANTHER | PTHR10291:SF0 | DEHYDRODOLICHYL DIPHOSPHATE SYNTHASE COMPLEX SUBUNIT DHDDS | 8 | 220 | 1.5E-80 |
| 1 | g9195.t3 | Pfam | PF01255 | Putative undecaprenyl diphosphate synthase | 34 | 220 | 6.8E-68 |
| 7 | g9195.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 213 | - |
| 9 | g9195.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 214 | 237 | - |
| 8 | g9195.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 238 | 251 | - |
| 12 | g9195.t3 | ProSitePatterns | PS01066 | Undecaprenyl pyrophosphate synthase family signature. | 200 | 217 | - |
| 5 | g9195.t3 | SUPERFAMILY | SSF64005 | Undecaprenyl diphosphate synthase | 22 | 223 | 4.58E-71 |
| 13 | g9195.t3 | TIGRFAM | TIGR00055 | uppS: di-trans,poly-cis-decaprenylcistransferase | 27 | 220 | 1.9E-71 |
| 11 | g9195.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 214 | 236 | - |
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:0016765 | transferase activity, transferring alkyl or aryl (other than methyl) groups | MF |
KEGG
Orthology
- This transcript has been annotated with K11778 (ditrans,polycis-polyprenyl diphosphate synthase)
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