General information for g955.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 g955 is located on chr_3: 7024520..7025008 (+ 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_3 | g955 | g955.t1 | TSS | g955.t1 | 7023540 | 7023540 |
| chr_3 | g955 | g955.t1 | isoform | g955.t1 | 7024520 | 7025008 |
| chr_3 | g955 | g955.t1 | exon | g955.t1.exon1 | 7024520 | 7025008 |
| chr_3 | g955 | g955.t1 | cds | g955.t1.CDS1 | 7024520 | 7025008 |
| chr_3 | g955 | g955.t1 | TTS | g955.t1 | 7025389 | 7025389 |
Sequences
>g955.t1 Gene=g955 Length=489
ATGTGGATTTTTGAAAAAAAAAAAGACGAAACTGGAAATGCAGTTTACAATGTTAATATG
AAGAAGGCCTTCGCACAAATGACTTGGTCAATAATCGATAATATCATCACACAGAAATTT
GGATCAAAAGCTGCGCGTATTTTTAGAGTTGTTCGCACTAAAAAGTTCATTGAACAGGAT
GAAATTCAACAAGAAGCAATGATACCACCAAAAGAGGCTCGATTGTTCACATATAAATTA
CTCGAAGAAAATCTTTTATTAATTAAATCGATCAAAAAGAGCGGAGGGATGGGACCATCA
AAACCAATTTACCTTTTTTATGTCAATCAACATCAAATTGCTCGTGATTTGATCGAGACT
TGTTATAAAACTCTTTACAATTTAACTGTTCGTGTAATTCAAGATAAAGAAATGAGTAAA
AGACTAATGGACAAAGAATTGCGACTTCAACTGGTCATTGACAATCTCAAAGAGCGCGGT
GAATCTTAA
>g955.t1 Gene=g955 Length=162
MWIFEKKKDETGNAVYNVNMKKAFAQMTWSIIDNIITQKFGSKAARIFRVVRTKKFIEQD
EIQQEAMIPPKEARLFTYKLLEENLLLIKSIKKSGGMGPSKPIYLFYVNQHQIARDLIET
CYKTLYNLTVRVIQDKEMSKRLMDKELRLQLVIDNLKERGES
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g955.t1 | Gene3D | G3DSA:1.10.10.10 | winged helix repressor DNA binding domain | 20 | 109 | 0 |
| 1 | g955.t1 | PANTHER | PTHR12949 | RNA POLYMERASE III DNA DIRECTED -RELATED | 6 | 153 | 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.
