Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative DNA polymerase zeta catalytic subunit.

Parent gene

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 g12259 g12259.t15 TSS g12259.t15 22047073 22047073
chr_1 g12259 g12259.t15 isoform g12259.t15 22047714 22048958
chr_1 g12259 g12259.t15 exon g12259.t15.exon1 22047714 22048958
chr_1 g12259 g12259.t15 cds g12259.t15.CDS1 22047906 22048958
chr_1 g12259 g12259.t15 TTS g12259.t15 22049352 22049352

Sequences

>g12259.t15 Gene=g12259 Length=1245
CAAATTGATCTAAAAATCAACTCATCTTTCGGTCAATCTAACAGTGCTCAACAACATGTT
TATCGAATATCTCTCTGCAAAGGAACGTTTTTTTATGGCTATCATCACAATCAGAGTCAG
TTGTTTAAAATTGAACTGTATAATCCAAATCTGCTTAAAAGAACTGCTGGACTCTTACAA
AATGGGTTGATAATGGGGAGAATTTTTCAAAGTTATGAAACTCACATTCCATATGTTATG
AGATTTTTCATAGACTTTAATTTATTTGGGATGAGTTATCTTCATGTGCCAATGAATAAA
GTGCATACACGTCACACAACAAGTGAAGGAAGATACAAAAAAAGATCAGTGTCACATCTT
GAAGTGGATTTTAGTGCAGCACATATTATTAATCGTATAGCTTTATATGAGAGTGAAGAG
ACTGATAAAGCAGCTAATATTGGGATACAATTTCTATGGGAGGATGAGAAAAGAAGAAGA
GAACTTGAATTTAATTCACAAGACATGCCAGAATTAAAACCAGCTGAGAGTGAATTGAGA
CCATTTTATCAAATTGCTTCGAGTGAAACTTTTTACAAAAATGCACTCCTTAATAAAATC
AATTCACTCTTTGCAAAAACTGAAAATTCAGATGAGGCTGAAACATCATCAACAAGTGCA
ACAAAGATTAAGAAGAAATTCAATTTACAACAATTTCTTGAATGTTCAACATATGGTGTC
GATTTTTCTCAAAGTTTTTCAGAAGATTTAAATTCTAGTATAGTATCAAATGAAAGCCCA
CCATTAGAGGATCTTGAGAAAGAATATCTTCAATTAGATAAAATTGAAGAAAAGCAAGAA
ATTGAAGAAATTCTTAATAATTTGGAAAATGTATGTAACAGTGATGAAGAAAATGATAGT
ATTCTTGCACCTTTAACTCAAACAATTTCAAAAAATAGTCAAATAAAAGAAAATGAAAAT
CAATTAAACTATTCAATAAATGAAATAACTAAAAATGATGATGAGGAAGATGTAGAAGAT
GAAGACACATTTAATATGACACTAGCTGATATGGAGGCAGCTCTTTATAACTTGAGTGAT
AAAATTGATATTCCACAATTAGATGGTGCAATCGATGACATCAATTCGAAAAACACTCCG
TCAACCTCTTCATCTGTTTTATCATTCCAAGATATTCAAAATAATTTACAATCTTTGGCT
GCTCATTTTATGTCTAATGAAGATGTTGAAATGAAAGAAACCGAT

>g12259.t15 Gene=g12259 Length=351
MGRIFQSYETHIPYVMRFFIDFNLFGMSYLHVPMNKVHTRHTTSEGRYKKRSVSHLEVDF
SAAHIINRIALYESEETDKAANIGIQFLWEDEKRRRELEFNSQDMPELKPAESELRPFYQ
IASSETFYKNALLNKINSLFAKTENSDEAETSSTSATKIKKKFNLQQFLECSTYGVDFSQ
SFSEDLNSSIVSNESPPLEDLEKEYLQLDKIEEKQEIEEILNNLENVCNSDEENDSILAP
LTQTISKNSQIKENENQLNYSINEITKNDDEEDVEDEDTFNMTLADMEAALYNLSDKIDI
PQLDGAIDDINSKNTPSTSSSVLSFQDIQNNLQSLAAHFMSNEDVEMKETD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g12259.t15 Coils Coil Coil 198 234 -
4 g12259.t15 Gene3D G3DSA:3.30.342.10 DNA Polymerase 1 44 2.3E-7
2 g12259.t15 PANTHER PTHR45812 DNA POLYMERASE ZETA CATALYTIC SUBUNIT 1 321 2.0E-18
1 g12259.t15 Pfam PF03104 DNA polymerase family B, exonuclease domain 4 43 8.6E-5
3 g12259.t15 SUPERFAMILY SSF53098 Ribonuclease H-like 2 69 3.32E-6

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:0019985 translesion synthesis BP
GO:0006281 DNA repair BP
GO:0016035 zeta DNA polymerase 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. There were no conditions that were differentially expressed