General information for g10819.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative DNA-directed RNA polymerase III subunit RPC3.
Parent gene
- The parent gene g10819 is located on chr_1: 12141647..12142240 (- 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 | g10819 | g10819.t1 | TTS | g10819.t1 | 12141428 | 12141428 |
| chr_1 | g10819 | g10819.t1 | isoform | g10819.t1 | 12141647 | 12142240 |
| chr_1 | g10819 | g10819.t1 | exon | g10819.t1.exon1 | 12141647 | 12142240 |
| chr_1 | g10819 | g10819.t1 | cds | g10819.t1.CDS1 | 12141647 | 12142240 |
| chr_1 | g10819 | g10819.t1 | TSS | g10819.t1 | NA | NA |
Sequences
>g10819.t1 Gene=g10819 Length=594
ATGAAGAAGGCCTTCACACAAATGACCTGGTCAATAATCGACAATATCATCACACAGAAA
TTTGGATCAAAAGCTGCGCGTATTTTTAGAGTTGTTCGCACTAAAAAGTTCATTGAACAG
GATGAAATTCAACGAGAAGCAATGATACCACCAAAAGAGGCTCGATTGTTCACATATAAA
TTACTCGAAGAAAATCTTTTATTAATTAAATCGATCAAAAAAAGCGGAGGGATGGGACCA
TCAAAACCAATTTACCTTTTTTATGTTAATCAACATCAAATTGCTCGTGATTTGATTGAG
ACATGTTATAAAACTCTTTACAATTTAACTGTTCGTGTAATTCAAGATAAAGAAATGAGT
AAAAGACTAATGGACAAAGAATTGCGACTTCAACTGGTTATTGATAGTCTCAAAGAGCGC
GGAGAATCTGAAGAAGCCATTCAAGAAATTAGTGAAACACTTACACCACCAGAAAGAGAG
TCAATCAAAACAACTAAAATGCGCTTGAAGCGACTTGAAAGTGCTGAAATAATGGTTGAT
GAAATGCTTTTTCTGTTGCAACTTTATCTTCATTATCATTCGTCGAACAGATAA
>g10819.t1 Gene=g10819 Length=197
MKKAFTQMTWSIIDNIITQKFGSKAARIFRVVRTKKFIEQDEIQREAMIPPKEARLFTYK
LLEENLLLIKSIKKSGGMGPSKPIYLFYVNQHQIARDLIETCYKTLYNLTVRVIQDKEMS
KRLMDKELRLQLVIDSLKERGESEEAIQEISETLTPPERESIKTTKMRLKRLESAEIMVD
EMLFLLQLYLHYHSSNR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g10819.t1 | Gene3D | G3DSA:1.10.10.10 | winged helix repressor DNA binding domain | 1 | 90 | 0 |
| 1 | g10819.t1 | PANTHER | PTHR12949 | RNA POLYMERASE III DNA DIRECTED -RELATED | 1 | 189 | 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:0003697 | single-stranded DNA binding | MF |
| GO:0005666 | RNA polymerase III complex | CC |
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.
