General information for g9155.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative DNA-directed RNA polymerases I, II, and III subunit RPABC3.
Parent gene
- The parent gene g9155 is located on chr_1: 526631..527198 (+ 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 | g9155 | g9155.t1 | TSS | g9155.t1 | 526591 | 526591 |
| chr_1 | g9155 | g9155.t1 | isoform | g9155.t1 | 526631 | 527198 |
| chr_1 | g9155 | g9155.t1 | exon | g9155.t1.exon1 | 526631 | 526717 |
| chr_1 | g9155 | g9155.t1 | cds | g9155.t1.CDS1 | 526631 | 526717 |
| chr_1 | g9155 | g9155.t1 | exon | g9155.t1.exon2 | 526795 | 526897 |
| chr_1 | g9155 | g9155.t1 | cds | g9155.t1.CDS2 | 526795 | 526897 |
| chr_1 | g9155 | g9155.t1 | exon | g9155.t1.exon3 | 526963 | 527198 |
| chr_1 | g9155 | g9155.t1 | cds | g9155.t1.CDS3 | 526963 | 527198 |
| chr_1 | g9155 | g9155.t1 | TTS | g9155.t1 | NA | NA |
Sequences
>g9155.t1 Gene=g9155 Length=426
ATGTCTGGAATTTTATTTGAAGATATCTTTAATGTAAAAGACATGGATCCAGAAGGAAAG
AAATTTGATCGAGTTCTCGATTACACTCAAATTATTACGTTTTTAGTGAATTCTTGGATT
TATCCGATGGATCTTGGTGATAAATTTCGACTTGTATTAGCTACAACACTTCAAGAAGAC
GGTCGTCCAGCAAGTCAAGAGTACATAGCGAGTGAAATTGAAGGATCAAGAGCTGACAGT
TTTGAATATGTAATGTTTGGTCAAGTTTACAGAATAGAAGGAGATGATTCAGAAGCATCA
AGTCGACTCTCAGCTTTTGTGTCATTTGGAGGTTTGTTGATGAGACTGCAAGGTGATGCT
AATAACTTGCATGGATTTGAAATAGATCAGAAAATTTATCTACTCATGAAGAAATTGGCT
TTCTAA
>g9155.t1 Gene=g9155 Length=141
MSGILFEDIFNVKDMDPEGKKFDRVLDYTQIITFLVNSWIYPMDLGDKFRLVLATTLQED
GRPASQEYIASEIEGSRADSFEYVMFGQVYRIEGDDSEASSRLSAFVSFGGLLMRLQGDA
NNLHGFEIDQKIYLLMKKLAF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g9155.t1 | Gene3D | G3DSA:2.40.50.140 | - | 6 | 141 | 0 |
| 2 | g9155.t1 | PANTHER | PTHR10917 | DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC3 | 1 | 139 | 0 |
| 6 | g9155.t1 | PIRSF | PIRSF000779 | RPB8 | 1 | 140 | 0 |
| 1 | g9155.t1 | Pfam | PF03870 | RNA polymerase Rpb8 | 7 | 138 | 0 |
| 4 | g9155.t1 | SMART | SM00658 | rpol8neu | 2 | 138 | 0 |
| 3 | g9155.t1 | SUPERFAMILY | SSF50249 | Nucleic acid-binding proteins | 3 | 138 | 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:0006351 | transcription, DNA-templated | 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. There were no conditions that were differentially expressed