General information for g11202.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative ATP-dependent DNA helicase 2 subunit 1.
Parent gene
- The parent gene g11202 is located on chr_1: 14557451..14559403 (+ 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 | g11202 | g11202.t10 | TSS | g11202.t10 | 14557362 | 14557362 |
| chr_1 | g11202 | g11202.t10 | isoform | g11202.t10 | 14557451 | 14558530 |
| chr_1 | g11202 | g11202.t10 | exon | g11202.t10.exon1 | 14557451 | 14557538 |
| chr_1 | g11202 | g11202.t10 | cds | g11202.t10.CDS1 | 14557488 | 14557538 |
| chr_1 | g11202 | g11202.t10 | exon | g11202.t10.exon2 | 14557781 | 14558530 |
| chr_1 | g11202 | g11202.t10 | cds | g11202.t10.CDS2 | 14557781 | 14558530 |
| chr_1 | g11202 | g11202.t10 | TTS | g11202.t10 | 14559467 | 14559467 |
Sequences
>g11202.t10 Gene=g11202 Length=838
ATGGCAACATCGCTTTATCAATTTACTCAGTATAACGATGATGATGAACAAGAAGACATT
AAACATTTTATTACAGGAAAAGATATCAATAGCAGTGATATTTTATAATACACAACATTC
ACCAGAACCAAAATCTGATGTACAGATTGCTTGTCCAGATCAATGTGCTATTCTTTTTAC
TCTTCAATCAATTGAATCAGATATTATTCGCTTTATCAAAAATATGAAAGCGTCAGGCGA
TTATCACGATTTTGCAACAAAGTATGGTCATTCAAAAGATACACAGTTATCAGAAGTTCT
CTGGCTCTGTAATGCTTTAGTTTCAAATTCTGGTATTTTTGTACGAAATTGTACTATCGT
GTGGTTCACAGATAATGACCAGCCTCATCAGTTGAATACACCTGAATATACTTCAGTTAT
GCAAAAAACTGCAGATCTGCACAATCTTCATCCAGATTTTCAATTGGTTCCATTAAAAGA
AACTTTCAAAAAAGATTTGTTCTATAATGAATTCCTGCAGAATATTATGAAGGACCGTGA
TGAAATAGAATTTCCGACACCAACAATTGACACAGATGAACTTGCAAGACGACTTTTAAC
TCGCAGTTATCGTAATAGAGCTCTATCTTATCTCACTGTTGAGATACTTGATAGACCACA
ATTTAGTGTCGGCATCTACACTTTCACATCAAAAAAATCCGGACCACGTTCAGAAACAAT
TTCACGTGTGACGAAGGAAGTAGTAAAATCTAAGCGTTCTTATAAATATGGACACTTTAA
AGAAGATAATGAAGATGACTTGAATGTCAGTTTTAATGAAAAGTTAACTGCTGAGAAA
>g11202.t10 Gene=g11202 Length=267
MMMNKKTLNILLQEKISIAVIFYNTQHSPEPKSDVQIACPDQCAILFTLQSIESDIIRFI
KNMKASGDYHDFATKYGHSKDTQLSEVLWLCNALVSNSGIFVRNCTIVWFTDNDQPHQLN
TPEYTSVMQKTADLHNLHPDFQLVPLKETFKKDLFYNEFLQNIMKDRDEIEFPTPTIDTD
ELARRLLTRSYRNRALSYLTVEILDRPQFSVGIYTFTSKKSGPRSETISRVTKEVVKSKR
SYKYGHFKEDNEDDLNVSFNEKLTAEK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11202.t10 | Gene3D | G3DSA:3.40.50.410 | - | 2 | 190 | 0 |
| 2 | g11202.t10 | PANTHER | PTHR12604 | KU AUTOANTIGEN DNA HELICASE | 13 | 247 | 0 |
| 3 | g11202.t10 | PANTHER | PTHR12604:SF2 | X-RAY REPAIR CROSS-COMPLEMENTING PROTEIN 6 | 13 | 247 | 0 |
| 1 | g11202.t10 | Pfam | PF03731 | Ku70/Ku80 N-terminal alpha/beta domain | 15 | 195 | 0 |
| 4 | g11202.t10 | SUPERFAMILY | SSF53300 | vWA-like | 4 | 165 | 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:0043564 | Ku70:Ku80 complex | CC |
| GO:0042162 | telomeric DNA binding | MF |
| GO:0005634 | nucleus | CC |
| GO:0003677 | DNA binding | MF |
| GO:0003684 | damaged DNA binding | MF |
| GO:0006303 | double-strand break repair via nonhomologous end joining | BP |
| GO:0000723 | telomere maintenance | BP |
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.
