General information for g14177.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as DNA polymerase epsilon catalytic subunit 1.
Parent gene
- The parent gene g14177 is located on chr_1: 35244564..35247204 (- 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 | g14177 | g14177.t10 | TTS | g14177.t10 | 35239495 | 35239495 |
| chr_1 | g14177 | g14177.t10 | isoform | g14177.t10 | 35240399 | 35246140 |
| chr_1 | g14177 | g14177.t10 | exon | g14177.t10.exon1 | 35240399 | 35240694 |
| chr_1 | g14177 | g14177.t10 | cds | g14177.t10.CDS1 | 35240399 | 35240694 |
| chr_1 | g14177 | g14177.t10 | exon | g14177.t10.exon2 | 35245079 | 35245856 |
| chr_1 | g14177 | g14177.t10 | cds | g14177.t10.CDS2 | 35245079 | 35245781 |
| chr_1 | g14177 | g14177.t10 | exon | g14177.t10.exon3 | 35245980 | 35246140 |
| chr_1 | g14177 | g14177.t10 | TSS | g14177.t10 | NA | NA |
Sequences
>g14177.t10 Gene=g14177 Length=1235
CTAAACCAGAATTTGAAGGAAATTTCATAGTTTTTAATGAACCAAATGAGTTATCACTAA
TTCAACGTTTTTTCGATCACATACTTGAAGTTCGACCTCATATTATAGTAACATACAATG
GAGATTTTTTCGATTGGCCGTTTGTTGAAACTCGTGCAGCTGTTGGTTCTCAAGGTCTCA
AAGCTGTAGCTAAAGCAAAATTGCGGTACGATCCTGTTGAATTAGATCCAGAAGAGATGT
GCAAAAAAGCAGTTGAACAACCACAAGAGCTCGCAAGTTATTCAGTTTCAGATGCTGTTG
CAACATATTATCTTTATATGAAATATGTTCAACCTTTTATTTTTGCTTTGACAACAATTA
TTCCAATGGAACCCGATGAAGTTCTTCGTAAAGGTTCTGGAACTCTATGTGAATCGTTGC
TGATGAAAGAAGCATATCATGCCAACATCATTTTTCCAAATAAAGAACAGGCAGAATTAA
ATAAATTGACAGAAGATGGACATATGCTCGATACTGAAACTTATGTTGGTGGTCATATAG
AAGCTTTAGAATCTGGAGTTTTCAGAGCTGATTTACCATACAGATTTCGATTGGATTGTG
GTATGCTGCAAGAATTGAAGAATAAAGTATCACATGTTCTTAAGCATGCAATTGAAGTAG
AAGAAAATATTCCATTATCTGAAGTAACTAATTTTGATGAAGTAACAAAACAAATTCAAG
ATGTTTTACAAGCTCTTCATGATAATCCAAATCGAGTTGAAAAACCAGTTATTTATCACT
TGGATGTTGGTGCTATGTATCCAAATATTATCTTAACTAATCGTCTTCAACCATCTGCTA
TGGTAACTGAACAGGATTGTGCAGCTTGTGATTTTAATCGACCCGATGCAGCATGCAAGC
GTCAAATGGATTGGTTATGGAGAGGTGAAATACTTCCTGTATGGTTGTGTGCTCAATGCT
TTGTTAATTATGACACAGAAGATGTTGAACAACGTTTAATTGATGCATTGAATCGTAAAC
TCATGTCTTATACTCTTCAAGATCTTCAATGTACTCGCTGTAAAGAAATCAAACAAGATA
ACATCATGCAATATTGTCATTGTGCAGGAAATTACACAAATCTTATACAATCAAGTGAAA
TTGAAAGTTTAATAACTACTTTTAATCTTGTTGCTGATAATTATTCGATGATTTTACTAA
AAGAATATACTGATACGCTTCTAAATAATATTTAA
>g14177.t10 Gene=g14177 Length=332
MCKKAVEQPQELASYSVSDAVATYYLYMKYVQPFIFALTTIIPMEPDEVLRKGSGTLCES
LLMKEAYHANIIFPNKEQAELNKLTEDGHMLDTETYVGGHIEALESGVFRADLPYRFRLD
CGMLQELKNKVSHVLKHAIEVEENIPLSEVTNFDEVTKQIQDVLQALHDNPNRVEKPVIY
HLDVGAMYPNIILTNRLQPSAMVTEQDCAACDFNRPDAACKRQMDWLWRGEILPVWLCAQ
CFVNYDTEDVEQRLIDALNRKLMSYTLQDLQCTRCKEIKQDNIMQYCHCAGNYTNLIQSS
EIESLITTFNLVADNYSMILLKEYTDTLLNNI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g14177.t10 | Coils | Coil | Coil | 124 | 144 | - |
| 5 | g14177.t10 | Gene3D | G3DSA:3.30.420.10 | - | 1 | 52 | 5.7E-6 |
| 2 | g14177.t10 | PANTHER | PTHR10670 | DNA POLYMERASE EPSILON CATALYTIC SUBUNIT A | 1 | 234 | 3.0E-143 |
| 1 | g14177.t10 | PANTHER | PTHR10670 | DNA POLYMERASE EPSILON CATALYTIC SUBUNIT A | 236 | 329 | 3.0E-143 |
| 4 | g14177.t10 | SUPERFAMILY | SSF53098 | Ribonuclease H-like | 7 | 74 | 1.04E-12 |
| 3 | g14177.t10 | SUPERFAMILY | SSF56672 | DNA/RNA polymerases | 53 | 219 | 1.65E-17 |
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:0003887 | DNA-directed DNA polymerase activity | MF |
| GO:0003677 | DNA binding | MF |
| GO:0006281 | DNA repair | BP |
| GO:0006260 | DNA replication | BP |
| GO:0008622 | epsilon DNA polymerase complex | CC |
| GO:0003676 | nucleic acid 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.
