General information for g8670.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein farnesyltransferase subunit beta.
Parent gene
- The parent gene g8670 is located on chr_2: 32175512..32177168 (+ 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 | g8670 | g8670.t4 | isoform | g8670.t4 | 32171095 | 32171655 |
| chr_2 | g8670 | g8670.t4 | exon | g8670.t4.exon1 | 32171095 | 32171655 |
| chr_2 | g8670 | g8670.t4 | cds | g8670.t4.CDS1 | 32171144 | 32171653 |
| chr_2 | g8670 | g8670.t4 | TTS | g8670.t4 | 32171796 | 32171796 |
| chr_2 | g8670 | g8670.t4 | TSS | g8670.t4 | NA | NA |
Sequences
>g8670.t4 Gene=g8670 Length=561
ATCGAATGTTAATTTGAGAACACTACTAAGATGGGCAGTAAATAGACAAATGCGTTATGA
AGGTGGTTTTCAAGGACGAACGAATAAACTTGTTGATGGATGCTATTCATTTTGGCAAGG
CGCTCTTGTGCAAGTCATTCAAATGTTGATTGAAAAAAATACATGCACTGATGGATATAC
AATCAATATAGATGAACTTCTTTTTAATCGAACAGCTCTTCAAGAATATATATTGATTTG
TTGTCAAAAACCAAATGGTGGTTTGATCGATAAACCTGGAAAACCTGAAGATCTTTATCA
TACATGTTATACACTTAGTGGACTATCAATTGCTCAAAATTTTAATTCTACTAAACAACC
AGTTATTATTGGTAATTCAGAGACAAACGAAGTACTTGCCACTCATCCACTTTACAATAT
CTCACCGAAATCTGTCATGAAGGCATACATTTATGCTCAACAACATCTAATTGAAAAAGA
TGAAGATTTAATTGGATTTAAAGATCAGTGTGAAAACAGCGAGAAAGAAGCAAATGAAAC
TGATCAAAATAACGACCAATA
>g8670.t4 Gene=g8670 Length=170
MRYEGGFQGRTNKLVDGCYSFWQGALVQVIQMLIEKNTCTDGYTINIDELLFNRTALQEY
ILICCQKPNGGLIDKPGKPEDLYHTCYTLSGLSIAQNFNSTKQPVIIGNSETNEVLATHP
LYNISPKSVMKAYIYAQQHLIEKDEDLIGFKDQCENSEKEANETDQNNDQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g8670.t4 | Gene3D | G3DSA:1.50.10.20 | - | 1 | 151 | 0.0e+00 |
| 3 | g8670.t4 | PANTHER | PTHR11774 | GERANYLGERANYL TRANSFERASE TYPE BETA SUBUNIT | 2 | 138 | 0.0e+00 |
| 4 | g8670.t4 | PANTHER | PTHR11774:SF6 | PROTEIN FARNESYLTRANSFERASE SUBUNIT BETA | 2 | 138 | 0.0e+00 |
| 1 | g8670.t4 | Pfam | PF00432 | Prenyltransferase and squalene oxidase repeat | 2 | 23 | 3.9e-04 |
| 2 | g8670.t4 | Pfam | PF00432 | Prenyltransferase and squalene oxidase repeat | 53 | 95 | 7.9e-06 |
| 5 | g8670.t4 | SUPERFAMILY | SSF48239 | Terpenoid cyclases/Protein prenyltransferases | 2 | 139 | 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:0005965 | protein farnesyltransferase complex | CC |
| GO:0003824 | catalytic activity | MF |
| GO:0018343 | protein farnesylation | 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.
