Gene loci information

Transcript annotation

  • This transcript has been annotated as DNA polymerase epsilon subunit 2.

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 g9531 g9531.t11 TSS g9531.t11 3915142 3915142
chr_1 g9531 g9531.t11 isoform g9531.t11 3915516 3916934
chr_1 g9531 g9531.t11 exon g9531.t11.exon1 3915516 3916599
chr_1 g9531 g9531.t11 cds g9531.t11.CDS1 3915808 3916599
chr_1 g9531 g9531.t11 exon g9531.t11.exon2 3916656 3916934
chr_1 g9531 g9531.t11 cds g9531.t11.CDS2 3916656 3916934
chr_1 g9531 g9531.t11 TTS g9531.t11 3916953 3916953

Sequences

>g9531.t11 Gene=g9531 Length=1363
TTCAAATAGAAACGGTTATAATGAAGAATCTGAACCAATTTTTAGTGTAATAAATGCTTT
TGATGTACCATCATTTGAATATTGCAAAGGCACGAAAAAGTTTATACCAAAAACTACCAA
ATCTAAGCTTCTTGCTTCTGCTACATCACGATCGGAATATATACGAAATCGTTACAATAC
TATTTTACAGAGAATTTTGAGACATGATCTTTTTGCACCAAATGTGAATGAAAACATTCG
ATCTTCAGATAATGAAGTGCGTAAGTTTACGTTAAAATATGCAGAAAATTTAATGTCTGC
ATCAAGTGTTCCAGAGGTTGTCATGCTTGGTTTGCTCTCAAAATTTAAAGAAGGAAAGTT
CTATTTAGAAGATCCAACTGGCGCAATTCCAATTGATTTAAGTGAAACTAAATTTCATAA
TGGTTTGTACACAGAAGGTAGTTTTATGCTTGCTGAGGGAAGTTATAATGATGGCATTTT
GAAAGTGAATGGACTTGGATTTCCTCCTATTGAACCGAGCTCAAGCAGTCGTGCCTATTT
TGGGACTCAAAATTATTTTGGTGGTAGTTCATCTACTTTACTGAAATTCTCAAAAAGACT
TCTTGAGTATGAGCGATTGAATTTCGGTGCAAGTCTTATATTTCTTGCTGATTGTTGGCT
TGATGATGCTGGTGTAATGGATAAACTTAAAAAACTATTTATTGGATTTGATGAGTCACC
TCCTATAGCAATCATTTTAATGGGACCATTTCAAAAGAATAAAGGAAATGCTATGTCATT
AAGAAGTAGATTTTCACAATTAGCTGATTTAATTGATGCAACATTCAATTTAAAAACTGA
AACAGATATAGTCTTAGTACCAGATATTGAAGATCCAACAACTGCTAATATTCTTCCACG
TCCATCTTTGCCAACATGTATAGTTCAAGATTTACTTAAAAAGAACAAAAGGGTGATTCT
TGCTACAAATCCTTGTCGATTACAATATTGTACACAAGAAATTGTTGTTTGTCGACTCGA
TTTATTACGAAAGTTATGTCGAAATACAATAAAATTTCCTGATTCTGGTCAACTTGCTGA
TCACTTTGTGCGAACACTTTTATGTCAAGGAACATTGGCACCATTTACTCAACTAGTGTT
GCCTACATATTGGGATTTTGATTCATCATTGAGCTTATATCCACTTCCTGATTTAATTGT
CATTGGTGATAATAGTACAGATTTTCAGAAAACTCATAATGAATGTAATGTTGTTAATAC
TGGATCTTTTCCTCGTTCTAAATATTCATTTAAAGTTTATACACCTAATAATCGAACTGT
AGAAGATTCGCAAATACCCGATGATGATGATATGGAAAATTAA

>g9531.t11 Gene=g9531 Length=356
MSASSVPEVVMLGLLSKFKEGKFYLEDPTGAIPIDLSETKFHNGLYTEGSFMLAEGSYND
GILKVNGLGFPPIEPSSSSRAYFGTQNYFGGSSSTLLKFSKRLLEYERLNFGASLIFLAD
CWLDDAGVMDKLKKLFIGFDESPPIAIILMGPFQKNKGNAMSLRSRFSQLADLIDATFNL
KTETDIVLVPDIEDPTTANILPRPSLPTCIVQDLLKKNKRVILATNPCRLQYCTQEIVVC
RLDLLRKLCRNTIKFPDSGQLADHFVRTLLCQGTLAPFTQLVLPTYWDFDSSLSLYPLPD
LIVIGDNSTDFQKTHNECNVVNTGSFPRSKYSFKVYTPNNRTVEDSQIPDDDDMEN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g9531.t11 PANTHER PTHR12708 DNA POLYMERASE EPSILON SUBUNIT B 9 347 0
1 g9531.t11 Pfam PF04042 DNA polymerase alpha/epsilon subunit B 116 312 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:0003677 DNA binding MF
GO:0006260 DNA replication BP
GO:0006261 DNA-dependent DNA replication BP
GO:0008622 epsilon 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.

Raw TPM values