General information for g13109.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha.
Parent gene
- The parent gene g13109 is located on chr_1: 28002736..28003954 (+ 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 | g13109 | g13109.t1 | isoform | g13109.t1 | 28002736 | 28003954 |
| chr_1 | g13109 | g13109.t1 | exon | g13109.t1.exon1 | 28002736 | 28002784 |
| chr_1 | g13109 | g13109.t1 | cds | g13109.t1.CDS1 | 28002736 | 28002784 |
| chr_1 | g13109 | g13109.t1 | exon | g13109.t1.exon2 | 28002843 | 28003954 |
| chr_1 | g13109 | g13109.t1 | cds | g13109.t1.CDS2 | 28002843 | 28003954 |
| chr_1 | g13109 | g13109.t1 | TSS | g13109.t1 | NA | NA |
| chr_1 | g13109 | g13109.t1 | TTS | g13109.t1 | NA | NA |
Sequences
>g13109.t1 Gene=g13109 Length=1161
ATGATTTACGGATATGGACCAATTGTGTCTATCGAATATTCTGACGAGTATGCGAAAATC
ATAAAGTGTTTCGAGAAAGTTTCAAGTGAGGATGATTTTTCTGAGAAAAGTTTCAATTTG
ACCACTCAAGCAATTCGTTACAATCAATTCAATTACAATTTCTGGATTTTTCGAAGGAAA
ATATTGAAAAATCTTAAGTATGATCCATATAAAGAGCTCTGTTGGTGTGAGCAATTAATT
ATTGAGAATCCAAGTAATTTCCTCTCATGGGATCATCGTAGAATTATTGCAAATTTAAAT
CTTAGTTGCTGCACATCTGCTCAAGAATTTAGTCTGACTAAACGAGTACTCGAGCGCGAT
GCAAAAAATTATTATGCATGGAGTTATCGACAATGGATAATAAATACTTTCAAGTATACA
AATCTTGGATTGCTTACTGATGAAATGAATTTTACAGAAAAATTTATTAATGAAGATATA
CGAAATAATTCTGCATGGAATCAAAGATTTTTTATTGTGAGTCAACGTGGACGAACTGAT
TTTCCATTGGTAAAAAAAGAATTAAAATTTGCACTTGAGAAAATTAAGTTGGCAAATGGA
AATGAAAGTGCATGGAACTACATGAGAGGTCTGTTACAGACATTTGGATCGAAAAGACTT
TGGCAGTTTCAAGATTTAATTGATTATTGTGAACATGAATATAACGAGAATAATAATAGA
AACCAACACATTATGGCTTTTTTAATTGATTCAAAAATTGAATCTGTGCTTGATTTTTGT
GAATCAAATGAGTTTGTACAAACACAAAAAATTTATGATCTTTGCAATGACATGGCAAAC
AAGTATGACAAAATGCGAAAAAATTATTGGAAATTTGTGTACAAACAATTTTATTATGAT
AAAATAATGAATAGAAAGGAGAAGAATGATGTAAGTATCAGTGGTGGAGTAACACAGGAT
GAAACGTGGAAGGGTAAATTCGGAAAGAAACTTGAAAGTGATAAAATCAACCCACATATA
ATTGTCAATGAAGAATGTTCAATAGAGCAAAAAATAAAGAAAAAAGTAGTAACAAAAAAG
AAGCAGAAAAATGAAAAGGAAAAACCTATTCACCTTGGTACGAGCATATTAAATGAGTTG
ATGGATAAATACAACAATTGA
>g13109.t1 Gene=g13109 Length=386
MIYGYGPIVSIEYSDEYAKIIKCFEKVSSEDDFSEKSFNLTTQAIRYNQFNYNFWIFRRK
ILKNLKYDPYKELCWCEQLIIENPSNFLSWDHRRIIANLNLSCCTSAQEFSLTKRVLERD
AKNYYAWSYRQWIINTFKYTNLGLLTDEMNFTEKFINEDIRNNSAWNQRFFIVSQRGRTD
FPLVKKELKFALEKIKLANGNESAWNYMRGLLQTFGSKRLWQFQDLIDYCEHEYNENNNR
NQHIMAFLIDSKIESVLDFCESNEFVQTQKIYDLCNDMANKYDKMRKNYWKFVYKQFYYD
KIMNRKEKNDVSISGGVTQDETWKGKFGKKLESDKINPHIIVNEECSIEQKIKKKVVTKK
KQKNEKEKPIHLGTSILNELMDKYNN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g13109.t1 | Gene3D | G3DSA:1.25.40.120 | Protein prenylyltransferase | 3 | 315 | 0.0000000 |
| 5 | g13109.t1 | PANTHER | PTHR11129 | PROTEIN FARNESYLTRANSFERASE ALPHA SUBUNIT/RAB GERANYLGERANYL TRANSFERASE ALPHA SUBUNIT | 7 | 297 | 0.0000000 |
| 6 | g13109.t1 | PANTHER | PTHR11129:SF1 | PROTEIN FARNESYLTRANSFERASE/GERANYLGERANYLTRANSFERASE TYPE-1 SUBUNIT ALPHA | 7 | 297 | 0.0000000 |
| 4 | g13109.t1 | Pfam | PF01239 | Protein prenyltransferase alpha subunit repeat | 71 | 96 | 0.0001900 |
| 2 | g13109.t1 | Pfam | PF01239 | Protein prenyltransferase alpha subunit repeat | 108 | 136 | 0.0000000 |
| 3 | g13109.t1 | Pfam | PF01239 | Protein prenyltransferase alpha subunit repeat | 146 | 175 | 0.0000048 |
| 1 | g13109.t1 | Pfam | PF01239 | Protein prenyltransferase alpha subunit repeat | 185 | 214 | 0.0002800 |
| 11 | g13109.t1 | ProSiteProfiles | PS51147 | Protein prenyltransferases alpha subunit repeat profile. | 33 | 67 | 11.1160000 |
| 10 | g13109.t1 | ProSiteProfiles | PS51147 | Protein prenyltransferases alpha subunit repeat profile. | 68 | 102 | 12.1510000 |
| 13 | g13109.t1 | ProSiteProfiles | PS51147 | Protein prenyltransferases alpha subunit repeat profile. | 105 | 139 | 15.5320000 |
| 12 | g13109.t1 | ProSiteProfiles | PS51147 | Protein prenyltransferases alpha subunit repeat profile. | 144 | 178 | 16.4440000 |
| 9 | g13109.t1 | ProSiteProfiles | PS51147 | Protein prenyltransferases alpha subunit repeat profile. | 183 | 217 | 14.5060000 |
| 7 | g13109.t1 | SUPERFAMILY | SSF48439 | Protein prenylyltransferase | 6 | 297 | 0.0000000 |
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:0018342 | protein prenylation | BP |
| GO:0008318 | protein prenyltransferase activity | 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. There were no conditions that were differentially expressed