General information for g8670.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t3 | isoform | g8670.t3 | 32170289 | 32171655 |
| chr_2 | g8670 | g8670.t3 | exon | g8670.t3.exon1 | 32170289 | 32170378 |
| chr_2 | g8670 | g8670.t3 | cds | g8670.t3.CDS1 | 32170289 | 32170378 |
| chr_2 | g8670 | g8670.t3 | exon | g8670.t3.exon2 | 32170436 | 32171655 |
| chr_2 | g8670 | g8670.t3 | cds | g8670.t3.CDS2 | 32170436 | 32171653 |
| chr_2 | g8670 | g8670.t3 | TTS | g8670.t3 | 32171796 | 32171796 |
| chr_2 | g8670 | g8670.t3 | TSS | g8670.t3 | NA | NA |
Sequences
>g8670.t3 Gene=g8670 Length=1310
ATGGAAGAAGGACAAATAAGAAACTTTAGTGAAATTAAAACAGAAAAGTTTGATGATGAA
AATCTTGAAACAATAACGTCAAAAGAACAGATAAAAGTTGAGAATCTAGTCGAAAAATGC
TTTGATCGATTTGAACAATTAGCTGCACTTGACCCAACGATGCCATATTTTTATAGAAAA
GAACATATAAGATTTCTTGAAAGATCTCTGCGATTTTTATCGACTGGTTATGAATGTTTA
GATGCATCACGACCTTGGTTAGTTTACTGGATCTTACAATCAGCTCATTGTCTAAACTTT
AAATTCTCACATGAAGTGCTCACTGATGTTATTCACTTTCTCAAAAATTGCCGACATCCT
CATGGCGGTTTTGCAGGAGGTCCGAATCAATTTCCTCACTTGGCACCAACATATGCTGCA
GTTCTTAGTCTCTGTTTGATTGAAACGGAAGAAGCTTTTGAAACAATCGATTATGAAGGC
ATTAAAAATTTCTTATGGAGTGTTAGAACTGAAAATGGAGCATTTCGAATGCATGTTGAT
GGAGAAATTGATGTAAGAGGAGCTTATTGCGCAATTGTAGTTGCACGTTTAAGTGGTTTG
AGTCCAAACAATAAATTATTTGAAGGAACGGCTCAATGGATTGCATCTTGTCAAACATAT
GAAGGAGGATTCGGCGGAACACCAAATTTAGAAGCTCATGGTGGATATTCATTTTGTGCC
GCAGCTGCTTTAGCTCTTCTTGGCAATACATCGAATGTTAATTTGAGAACACTACTAAGA
TGGGCAGTAAATAGACAAATGCGTTATGAAGGTGGTTTTCAAGGACGAACGAATAAACTT
GTTGATGGATGCTATTCATTTTGGCAAGGCGCTCTTGTGCAAGTCATTCAAATGTTGATT
GAAAAAAATACATGCACTGATGGATATACAATCAATATAGATGAACTTCTTTTTAATCGA
ACAGCTCTTCAAGAATATATATTGATTTGTTGTCAAAAACCAAATGGTGGTTTGATCGAT
AAACCTGGAAAACCTGAAGATCTTTATCATACATGTTATACACTTAGTGGACTATCAATT
GCTCAAAATTTTAATTCTACTAAACAACCAGTTATTATTGGTAATTCAGAGACAAACGAA
GTACTTGCCACTCATCCACTTTACAATATCTCACCGAAATCTGTCATGAAGGCATACATT
TATGCTCAACAACATCTAATTGAAAAAGATGAAGATTTAATTGGATTTAAAGATCAGTGT
GAAAACAGCGAGAAAGAAGCAAATGAAACTGATCAAAATAACGACCAATA
>g8670.t3 Gene=g8670 Length=436
MEEGQIRNFSEIKTEKFDDENLETITSKEQIKVENLVEKCFDRFEQLAALDPTMPYFYRK
EHIRFLERSLRFLSTGYECLDASRPWLVYWILQSAHCLNFKFSHEVLTDVIHFLKNCRHP
HGGFAGGPNQFPHLAPTYAAVLSLCLIETEEAFETIDYEGIKNFLWSVRTENGAFRMHVD
GEIDVRGAYCAIVVARLSGLSPNNKLFEGTAQWIASCQTYEGGFGGTPNLEAHGGYSFCA
AAALALLGNTSNVNLRTLLRWAVNRQMRYEGGFQGRTNKLVDGCYSFWQGALVQVIQMLI
EKNTCTDGYTINIDELLFNRTALQEYILICCQKPNGGLIDKPGKPEDLYHTCYTLSGLSI
AQNFNSTKQPVIIGNSETNEVLATHPLYNISPKSVMKAYIYAQQHLIEKDEDLIGFKDQC
ENSEKEANETDQNNDQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g8670.t3 | CDD | cd02893 | FTase | 59 | 361 | 9.7674E-162 |
| 10 | g8670.t3 | Coils | Coil | Coil | 420 | 436 | - |
| 9 | g8670.t3 | Gene3D | G3DSA:1.50.10.20 | - | 2 | 423 | 3.2E-147 |
| 6 | g8670.t3 | PANTHER | PTHR11774 | GERANYLGERANYL TRANSFERASE TYPE BETA SUBUNIT | 12 | 404 | 6.2E-147 |
| 7 | g8670.t3 | PANTHER | PTHR11774:SF6 | PROTEIN FARNESYLTRANSFERASE SUBUNIT BETA | 12 | 404 | 6.2E-147 |
| 1 | g8670.t3 | Pfam | PF00432 | Prenyltransferase and squalene oxidase repeat | 110 | 147 | 3.7E-8 |
| 5 | g8670.t3 | Pfam | PF00432 | Prenyltransferase and squalene oxidase repeat | 156 | 196 | 0.0062 |
| 4 | g8670.t3 | Pfam | PF00432 | Prenyltransferase and squalene oxidase repeat | 209 | 248 | 8.1E-12 |
| 3 | g8670.t3 | Pfam | PF00432 | Prenyltransferase and squalene oxidase repeat | 256 | 289 | 7.6E-6 |
| 2 | g8670.t3 | Pfam | PF00432 | Prenyltransferase and squalene oxidase repeat | 319 | 361 | 3.4E-5 |
| 8 | g8670.t3 | SUPERFAMILY | SSF48239 | Terpenoid cyclases/Protein prenyltransferases | 12 | 405 | 2.55E-122 |
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 transcript has been annotated with K05954 (protein farnesyltransferase subunit beta)
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.
