General information for g14177.t9
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.t9 | TTS | g14177.t9 | 35239495 | 35239495 |
| chr_1 | g14177 | g14177.t9 | isoform | g14177.t9 | 35240399 | 35245857 |
| chr_1 | g14177 | g14177.t9 | exon | g14177.t9.exon1 | 35240399 | 35240472 |
| chr_1 | g14177 | g14177.t9 | cds | g14177.t9.CDS1 | 35240399 | 35240472 |
| chr_1 | g14177 | g14177.t9 | exon | g14177.t9.exon2 | 35240575 | 35240694 |
| chr_1 | g14177 | g14177.t9 | cds | g14177.t9.CDS2 | 35240575 | 35240694 |
| chr_1 | g14177 | g14177.t9 | exon | g14177.t9.exon3 | 35245079 | 35245857 |
| chr_1 | g14177 | g14177.t9 | cds | g14177.t9.CDS3 | 35245079 | 35245781 |
| chr_1 | g14177 | g14177.t9 | TSS | g14177.t9 | NA | NA |
Sequences
>g14177.t9 Gene=g14177 Length=973
TGTTGGTTCTCAAGGTCTCAAAGCTGTAGCTAAAGCAAAATTGCGGTACGATCCTGTTGA
ATTAGATCCAGAAGAGATGTGCAAAAAAGCAGTTGAACAACCACAAGAGCTCGCAAGTTA
TTCAGTTTCAGATGCTGTTGCAACATATTATCTTTATATGAAATATGTTCAACCTTTTAT
TTTTGCTTTGACAACAATTATTCCAATGGAACCCGATGAAGTTCTTCGTAAAGGTTCTGG
AACTCTATGTGAATCGTTGCTGATGAAAGAAGCATATCATGCCAACATCATTTTTCCAAA
TAAAGAACAGGCAGAATTAAATAAATTGACAGAAGATGGACATATGCTCGATACTGAAAC
TTATGTTGGTGGTCATATAGAAGCTTTAGAATCTGGAGTTTTCAGAGCTGATTTACCATA
CAGATTTCGATTGGATTGTGGTATGCTGCAAGAATTGAAGAATAAAGTATCACATGTTCT
TAAGCATGCAATTGAAGTAGAAGAAAATATTCCATTATCTGAAGTAACTAATTTTGATGA
AGTAACAAAACAAATTCAAGATGTTTTACAAGCTCTTCATGATAATCCAAATCGAGTTGA
AAAACCAGTTATTTATCACTTGGATGTTGGTGCTATGTATCCAAATATTATCTTAACTAA
TCGTCTTCAACCATCTGCTATGGTAACTGAACAGGATTGTGCAGCTTGTGATTTTAATCG
ACCCGATGCAGCATGCAAGCGTCAAATGGATTGGTTATGGAGAGGTGAAATACTTCCTGT
ATGGTTGTGTGCTCAATGCTTTGTTAATTATGACACAGAAGATGTTGAACAACGTTTAAT
TGATGCATTGAATCGTAAACTCATGTCTTATACTCTTCAAGATCTTCAATGTACTCGCTT
TAATCTTGTTGCTGATAATTATTCGATGATTTTACTAAAAGAATATACTGATACGCTTCT
AAATAATATTTAA
>g14177.t9 Gene=g14177 Length=298
MCKKAVEQPQELASYSVSDAVATYYLYMKYVQPFIFALTTIIPMEPDEVLRKGSGTLCES
LLMKEAYHANIIFPNKEQAELNKLTEDGHMLDTETYVGGHIEALESGVFRADLPYRFRLD
CGMLQELKNKVSHVLKHAIEVEENIPLSEVTNFDEVTKQIQDVLQALHDNPNRVEKPVIY
HLDVGAMYPNIILTNRLQPSAMVTEQDCAACDFNRPDAACKRQMDWLWRGEILPVWLCAQ
CFVNYDTEDVEQRLIDALNRKLMSYTLQDLQCTRFNLVADNYSMILLKEYTDTLLNNI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g14177.t9 | Coils | Coil | Coil | 124 | 144 | - |
| 5 | g14177.t9 | Gene3D | G3DSA:3.30.420.10 | - | 1 | 52 | 4.8E-6 |
| 1 | g14177.t9 | PANTHER | PTHR10670 | DNA POLYMERASE EPSILON CATALYTIC SUBUNIT A | 1 | 234 | 5.0E-132 |
| 2 | g14177.t9 | PANTHER | PTHR10670 | DNA POLYMERASE EPSILON CATALYTIC SUBUNIT A | 236 | 281 | 5.0E-132 |
| 4 | g14177.t9 | SUPERFAMILY | SSF53098 | Ribonuclease H-like | 7 | 74 | 8.44E-13 |
| 3 | g14177.t9 | SUPERFAMILY | SSF56672 | DNA/RNA polymerases | 53 | 221 | 8.26E-18 |
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.
