General information for g8925.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been not been annotated.
Parent gene
- The parent gene g8925 is located on chr_2: 33887808..33888064 (- 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 | g8925 | g8925.t1 | TTS | g8925.t1 | 33887760 | 33887760 |
| chr_2 | g8925 | g8925.t1 | isoform | g8925.t1 | 33887808 | 33888064 |
| chr_2 | g8925 | g8925.t1 | exon | g8925.t1.exon1 | 33887808 | 33887916 |
| chr_2 | g8925 | g8925.t1 | cds | g8925.t1.CDS1 | 33887808 | 33887916 |
| chr_2 | g8925 | g8925.t1 | exon | g8925.t1.exon2 | 33887970 | 33888064 |
| chr_2 | g8925 | g8925.t1 | cds | g8925.t1.CDS2 | 33887970 | 33888064 |
| chr_2 | g8925 | g8925.t1 | TSS | g8925.t1 | 33888149 | 33888149 |
Sequences
>g8925.t1 Gene=g8925 Length=204
ATGATAATTCCAATTCGTTGTTTCACTTGCGGAAAAGTCATAGGAAATAAATGGGAAGCA
TATTTAGGATTATTACAAGCAGAATATACAGAAGGTGACGCTCTTGATGCTTTAGGACTT
AAACGCTATTGTTGTAGACGAATGCTTCTAGGTCATGTCGATTTAATTGAGAAGCTCCTC
AACTACGCACCACTTGAACGCTAA
>g8925.t1 Gene=g8925 Length=67
MIIPIRCFTCGKVIGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLGHVDLIEKLL
NYAPLER
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g8925.t1 | Gene3D | G3DSA:1.10.10.60 | - | 1 | 67 | 3.2E-40 |
| 2 | g8925.t1 | PANTHER | PTHR23431:SF4 | DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC5 | 1 | 67 | 1.1E-42 |
| 3 | g8925.t1 | PANTHER | PTHR23431 | DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC5 FAMILY MEMBER | 1 | 67 | 1.1E-42 |
| 7 | g8925.t1 | PIRSF | PIRSF005653 | RpoN_RPB10 | 1 | 67 | 7.8E-33 |
| 1 | g8925.t1 | Pfam | PF01194 | RNA polymerases N / 8 kDa subunit | 1 | 59 | 2.6E-33 |
| 5 | g8925.t1 | ProSitePatterns | PS01112 | RNA polymerases N / 8 Kd subunits signature. | 2 | 11 | - |
| 4 | g8925.t1 | SUPERFAMILY | SSF46924 | RNA polymerase subunit RPB10 | 1 | 63 | 1.57E-29 |
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:0003899 | DNA-directed 5’-3’ RNA polymerase activity | MF |
| GO:0003677 | DNA binding | MF |
| GO:0008270 | zinc ion binding | MF |
| GO:0006351 | transcription, DNA-templated | BP |
KEGG
Orthology
- This transcript has been annotated with K03007 (DNA-directed RNA polymerases I, II, and III subunit RPABC5)
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.
