General information for g2750.t13
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as DNA polymerase iota.
Parent gene
- The parent gene g2750 is located on chr_3: 19979775..19981418 (+ 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 | g2750 | g2750.t13 | TSS | g2750.t13 | 19978785 | 19978785 |
| chr_3 | g2750 | g2750.t13 | isoform | g2750.t13 | 19979775 | 19981418 |
| chr_3 | g2750 | g2750.t13 | exon | g2750.t13.exon1 | 19979775 | 19979948 |
| chr_3 | g2750 | g2750.t13 | cds | g2750.t13.CDS1 | 19979840 | 19979948 |
| chr_3 | g2750 | g2750.t13 | exon | g2750.t13.exon2 | 19980015 | 19980678 |
| chr_3 | g2750 | g2750.t13 | cds | g2750.t13.CDS2 | 19980015 | 19980678 |
| chr_3 | g2750 | g2750.t13 | exon | g2750.t13.exon3 | 19980953 | 19981098 |
| chr_3 | g2750 | g2750.t13 | cds | g2750.t13.CDS3 | 19980953 | 19981022 |
| chr_3 | g2750 | g2750.t13 | exon | g2750.t13.exon4 | 19981410 | 19981418 |
| chr_3 | g2750 | g2750.t13 | TTS | g2750.t13 | NA | NA |
Sequences
>g2750.t13 Gene=g2750 Length=993
AACTCAAACTTACTTGTTCAGTAGGAATAGCTCATAATAAATTATTATCAAAGCTTGTAG
GTCAAATGAACAAGCCTAATAATCAAACAGTTTTAGCACCTACAGCAGCAAAAGCATTCA
TGTGTGAACTTCGTAATCTTCGCAGTATTACAGGTATTGGTGAGAAGACGGCAGAAAAGA
AATTTGGAAACGATATGGCACAGCGACTTAAAGAAATGTCTCTCGGAATAGATTCATCTG
ATTTTAAACCATCTGGAAAGCCAAAAACAGTCGGTCTCGAAGACTCATTTCGTCCAATCT
CAATTCGTAGTGATGCAGCAGAAAAATTTCATGCTCTCTTATCTCGACTTATGATACAAA
TCCAAGATGACGGTAGAGTGCCACAGTCGATAAAAGTAACAGTGAGGAAATATGATCCAG
CAAAGAAAAACAGTATTCGTGAGACGAAACAATGTACATTAGCACCATCACTCTTTCGAT
GTAGTGATGGTAAAATTCAATTAACAGAAGGTGCTGAACAAAAAATTATCAAGAATGTAT
TGATGCTTTTCGATCGAATGGTTGATTTGAAGCAACAGTTTAATATTACACTATTAGGGT
TGTGCTTTAGCAAATTTCAAGAACAGAAACGTGGTCCAGCATCAATTGCAAACTACCTTA
TGAAGAAGCAAGATGTTGAGGTACAATCAATAACGAATTTAAGTAATGAAACATGTAGTT
CATTTAATGATAGCTTCAGATCAAAAACTGCTTCACCATCTTCATCATTAATGGACTTTG
AAACAATATCTAACAATTCATTAGACTTATCGGGTTCAGAAGAATCGGAAGAGCCTTCAC
ATACCATGAATGTTGTGTTGATTTTCCTTTATAGTGTGGCAGGAGCTTCCACTAGATGTC
CAACGTGAATTAATGATGAATTGGCAGACAACTACTTCTGCTCCTTCGTCTACAACTGGC
ACAACATCCATTCCAAAAACAAAACTCTTAAGA
>g2750.t13 Gene=g2750 Length=280
MNKPNNQTVLAPTAAKAFMCELRNLRSITGIGEKTAEKKFGNDMAQRLKEMSLGIDSSDF
KPSGKPKTVGLEDSFRPISIRSDAAEKFHALLSRLMIQIQDDGRVPQSIKVTVRKYDPAK
KNSIRETKQCTLAPSLFRCSDGKIQLTEGAEQKIIKNVLMLFDRMVDLKQQFNITLLGLC
FSKFQEQKRGPASIANYLMKKQDVEVQSITNLSNETCSSFNDSFRSKTASPSSSLMDFET
ISNNSLDLSGSEESEEPSHTMNVVLIFLYSVAGASTRCPT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g2750.t13 | Gene3D | G3DSA:3.30.1490.100 | - | 66 | 190 | 0e+00 |
| 2 | g2750.t13 | PANTHER | PTHR46404 | DNA POLYMERASE IOTA | 2 | 38 | 0e+00 |
| 3 | g2750.t13 | PANTHER | PTHR46404 | DNA POLYMERASE IOTA | 36 | 239 | 0e+00 |
| 1 | g2750.t13 | Pfam | PF11799 | impB/mucB/samB family C-terminal domain | 62 | 187 | 0e+00 |
| 4 | g2750.t13 | SUPERFAMILY | SSF56672 | DNA/RNA polymerases | 1 | 64 | 3e-07 |
| 5 | g2750.t13 | SUPERFAMILY | SSF100879 | Lesion bypass DNA polymerase (Y-family), little finger domain | 67 | 185 | 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.
