General information for g9196.t9
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 g9196 is located on chr_1: 704743..705941 (- 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 | g9196 | g9196.t9 | TTS | g9196.t9 | 704379 | 704379 |
| chr_1 | g9196 | g9196.t9 | isoform | g9196.t9 | 704664 | 705941 |
| chr_1 | g9196 | g9196.t9 | exon | g9196.t9.exon1 | 704664 | 704668 |
| chr_1 | g9196 | g9196.t9 | exon | g9196.t9.exon2 | 704725 | 705190 |
| chr_1 | g9196 | g9196.t9 | cds | g9196.t9.CDS1 | 704743 | 705190 |
| chr_1 | g9196 | g9196.t9 | exon | g9196.t9.exon3 | 705288 | 705432 |
| chr_1 | g9196 | g9196.t9 | cds | g9196.t9.CDS2 | 705288 | 705382 |
| chr_1 | g9196 | g9196.t9 | exon | g9196.t9.exon4 | 705659 | 705941 |
| chr_1 | g9196 | g9196.t9 | TSS | g9196.t9 | NA | NA |
Sequences
>g9196.t9 Gene=g9196 Length=899
TCTTATTTTATTTCTAATAATTTAATTTAATCAATTTCATTAGTTTTTCTTAAAATTTAT
CGCACTTTCTTGCAAAAAAATTTTCTTCTTCTTTTTCTATGAAGCAGCTGAATTCGAGTA
AATGATGTTGTTTACGTGATTTTATTAATTTTTGTTTTATATTATAAATTAAAAGATAAT
TTTTAATATTGAATTTATTTCTAAATAAAGATAATATTATAATTTTTGTTTAAAGCAACA
TAAACTTTATTTATTGTTCAAAAATAAAGAAATATCGACAATTCAATTAAAATTATTAAG
CAAGGACCTATTCCAAAGCATATAGCATTTATTATGGATGGCAATCGTCGTTGGGCAACA
AAGTTTAATCTGAATAAATCAGAAGGACATAAATTTGGCTTTGAGAAACTCTCAGAAGCA
CTTCAATGGTGTCTGGAAATTGGAATTCAAGAAGTTACAGTTTATGCATTTAGTATTGAA
AATTTTAAAAGATCTCAAGATGAAATTGATACATTAATGGGATTGGCAAAAGAAAAATTT
GCAAAAGTACTTGAAGAAAAGGACAAATTACATGAAAAAGGTGTAAAAATAAGAGTTGTA
GGAAATTTAGACATGCTTCCAAATGATGTTCAAAAAGTTGTTGCTGATGCGATGCTTTTA
ACAAAAGACAATAGTAAATCAATTTTAAATGTTGCATTTGCATACACATCACGAGATGAA
ATTACAAATTCGATAAAAACAATTGTCGAAGGTGTTGAGAATAATGAACTGATTTCAGAA
GATTTAGATAATGTACTAATTGACGAATGTATGTATACAAATCAATCTTCACCAGTTGAC
TTACTCGTAAGAACATCTGGAGAAATGCGATTATAAGTGATTTCTTTTGTGCAGATACA
>g9196.t9 Gene=g9196 Length=180
MDGNRRWATKFNLNKSEGHKFGFEKLSEALQWCLEIGIQEVTVYAFSIENFKRSQDEIDT
LMGLAKEKFAKVLEEKDKLHEKGVKIRVVGNLDMLPNDVQKVVADAMLLTKDNSKSILNV
AFAYTSRDEITNSIKTIVEGVENNELISEDLDNVLIDECMYTNQSSPVDLLVRTSGEMRL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9196.t9 | CDD | cd00475 | Cis_IPPS | 1 | 180 | 0 |
| 5 | g9196.t9 | Gene3D | G3DSA:3.40.1180.10 | - | 1 | 180 | 0 |
| 2 | g9196.t9 | PANTHER | PTHR10291 | DEHYDRODOLICHYL DIPHOSPHATE SYNTHASE FAMILY MEMBER | 1 | 180 | 0 |
| 3 | g9196.t9 | PANTHER | PTHR10291:SF0 | DEHYDRODOLICHYL DIPHOSPHATE SYNTHASE COMPLEX SUBUNIT DHDDS | 1 | 180 | 0 |
| 1 | g9196.t9 | Pfam | PF01255 | Putative undecaprenyl diphosphate synthase | 1 | 180 | 0 |
| 4 | g9196.t9 | SUPERFAMILY | SSF64005 | Undecaprenyl diphosphate synthase | 1 | 180 | 0 |
| 6 | g9196.t9 | TIGRFAM | TIGR00055 | uppS: di-trans,poly-cis-decaprenylcistransferase | 1 | 180 | 0 |
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 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.
