General information for g13083.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative DNApol-eta.
Parent gene
- The parent gene g13083 is located on chr_1: 27860602..27862364 (+ 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 | g13083 | g13083.t5 | TSS | g13083.t5 | 27859270 | 27859270 |
| chr_1 | g13083 | g13083.t5 | isoform | g13083.t5 | 27860277 | 27860602 |
| chr_1 | g13083 | g13083.t5 | exon | g13083.t5.exon1 | 27860277 | 27860602 |
| chr_1 | g13083 | g13083.t5 | cds | g13083.t5.CDS1 | 27860295 | 27860600 |
| chr_1 | g13083 | g13083.t5 | TTS | g13083.t5 | NA | NA |
Sequences
>g13083.t5 Gene=g13083 Length=326
AAATTAAATGTCAAAAAAATGAATGATCTGCTGGTATATCAAGAAAGTGAATTACAAAAA
AATTTCGGAGCTCGTATTGGTAGCTTCCTTTATTTGATTGCACGTGGAATTGATTTGGAA
AAAGTCGAAAGAAAAGTAATGAATAAGTGCATAGCAGTTTCAAAAAATTTTCGTGGTAAA
AATGAAATCTGTAATGTAAATTCATTGAAATTTTGGCTTAAGGAGCTGTCAAAACAATTA
AAAGAACGACTCGATTTAGATCATGCTGAAAATGGTCGTGTTGCGAAGCAAATGACTGTT
CAATTTACACAACATATTGAGAATAA
>g13083.t5 Gene=g13083 Length=102
MNDLLVYQESELQKNFGARIGSFLYLIARGIDLEKVERKVMNKCIAVSKNFRGKNEICNV
NSLKFWLKELSKQLKERLDLDHAENGRVAKQMTVQFTQHIEN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g13083.t5 | Gene3D | G3DSA:1.10.150.20 | 5’ to 3’ exonuclease | 1 | 34 | 1e-07 |
| 5 | g13083.t5 | Gene3D | G3DSA:3.30.1490.100 | - | 36 | 102 | 0e+00 |
| 2 | g13083.t5 | PANTHER | PTHR45873 | DNA POLYMERASE ETA | 1 | 98 | 0e+00 |
| 1 | g13083.t5 | Pfam | PF11799 | impB/mucB/samB family C-terminal domain | 41 | 96 | 2e-04 |
| 3 | g13083.t5 | SUPERFAMILY | SSF100879 | Lesion bypass DNA polymerase (Y-family), little finger domain | 41 | 98 | 0e+00 |
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:0006281 | DNA repair | BP |
| GO:0003684 | damaged DNA binding | 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.
