General information for g9649.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Serine/threonine-protein kinase ATR.
Parent gene
- The parent gene g9649 is located on chr_1: 4478125..4479451 (- 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 | g9649 | g9649.t3 | isoform | g9649.t3 | 4468511 | 4470438 |
| chr_1 | g9649 | g9649.t3 | exon | g9649.t3.exon1 | 4468511 | 4468757 |
| chr_1 | g9649 | g9649.t3 | exon | g9649.t3.exon2 | 4468825 | 4470438 |
| chr_1 | g9649 | g9649.t3 | cds | g9649.t3.CDS1 | 4470060 | 4470401 |
| chr_1 | g9649 | g9649.t3 | TSS | g9649.t3 | NA | NA |
| chr_1 | g9649 | g9649.t3 | TTS | g9649.t3 | NA | NA |
Sequences
>g9649.t3 Gene=g9649 Length=1861
CGTTCCCGAAAGAGTTCCATTTAGATTGACAAATTCAATGATTGAAGCCATGGGTATTTT
GGGTGTTGAAGGACCTTTTAAAAGATGCTGTGAAATTACATTAAAAATAATGCATAATGA
GATTCACACTTTAATGTCTTATTTGCGACCTTTTATTTATGACCCAATGATTTCGAAAAA
CGAGAAAGAAAATTTTGATCCTAATGCTTTAGAAAATCTTCAATGTATCGAAAAGAAACT
GAAAGGAATTGTTAGACGGTTCAAGAAATTTACAGAAGTACCAATATCAATTGAAGGAAA
TGTTAATATGATTTTAAAGGAAGCAACATCTGATGAAAATTTATCATTAATGTACTTTCA
TTGGAGTCCATTTATTTGAAAAAAAAAATTCTACATATAATGACTATAATTTTAATTTAT
TATAATTTAAATAAAAATCTACTCTATTTTCTATAAATTTTGCTGTGTTGAAAATCAATT
TCTCTGAAAAATTGGGACCCATTAATTGAAGACTAATGGGAAGATTATTACTAGATAATT
TAATTGGAATCGATAAAGCTGGAACACCAGCCATATTTGCAGGACAAGTGCAAAAGTCTT
GAACAGCACATTGATCTCGATTGTTATTTTTTGTGAAATCGCTTAGTAAAGGTGCATCAG
AGAGTGTTGTGGGAGTCAGTAATAAATCAATTTTTGAAAATGCTTTTTTGAAATCATCAC
TAACCAATCGTCTAACTTTGAGTGCTTTCAGAAAATATTTTTCATAATTTTTTCGTAACA
AAAAATAGTTACCCGCAAGAATTCTATTTTTAACAACTCCATTAAAACCTTCAGCACGTG
TCTTTGAATATAAATTTTCTGTACTTGATTCGTCATCTGCTCGATGTCCATATTCAATTC
CATCATAACGTGCCATATTACTAGCTACTTCACATTGATTTAAAATGGAATAAACAAATA
TTGATGCTGTAGTGTATGGCATAGATATTTCCTCTACTCTTGCACCATTCTCTTCAAGAA
AATCTGCCATCTTTGTCCAAGCTTCTAGCACTTCAGATGTTAGACCCTCGCAATTATATT
CTTTAGGTATACCAATTTTAACATTTTTTAAATTAAAATTTTCAGACAATTCAATTGGAT
TAAATGATTTTTTAATTGTGGTTGAATCTAAATCATCTGGTCCTGCAATCGTATTAAAAA
TGTCTACACAATCATCAACGGTTTTTGTTAAAATTCCTGGAACATCCATAGAATTGACTA
ATGGAATCAAACCATGTCTTGAAAGTAAACCATATGTAGGTTTAAAACCAATCACACCAG
AATATGATGCAGGATTGCGAGTAGATCCGCCAGTATCTGACCCAAGAGCAGTAGAACAAA
AATTGGCAGCAACAGCAGAAGCGGAACCACCACTAGAACCTCCACATATTCTAGGATTGT
TTAAATTTTCACTCCATACATTTTTCGTAGGCCCAAAAATAGAGTCAACTGTGCCTGAAC
CCATTCCATATTGATCCAAATTTGTTTTTCCAACTAGTATAGCACCTGCCTTTTCCAACT
TATCATAAACTGTGGCATTATAAGTTGGTACAAAATTTTTCAGCATTCTATAACAACCAC
ATGTCGTTCTTATTCCTTTTGTACAAAAATTATCTTTGCATGCTACTAAAATGCCATCAA
GTTTCAATTTTTTTCCTAATGCAATTCGATTAGCTGATTCTTCAGCCTTTTTTAATGCAA
ATTCCTCAGATAGTGTTATGAATGCATTAATATCATTATTGTTTCTTTTAATATTTTTAA
ACACTTCTAATGTATGTTCTTTAGGACACAAAAGTTTTTCATCAAATTTTCTTGACAGCT
G
>g9649.t3 Gene=g9649 Length=113
MIEAMGILGVEGPFKRCCEITLKIMHNEIHTLMSYLRPFIYDPMISKNEKENFDPNALEN
LQCIEKKLKGIVRRFKKFTEVPISIEGNVNMILKEATSDENLSLMYFHWSPFI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g9649.t3 | PANTHER | PTHR11139 | ATAXIA TELANGIECTASIA MUTATED ATM -RELATED | 1 | 109 | 0.0000000 |
| 3 | g9649.t3 | PANTHER | PTHR11139:SF69 | SERINE/THREONINE-PROTEIN KINASE ATR | 1 | 109 | 0.0000000 |
| 1 | g9649.t3 | Pfam | PF02260 | FATC domain | 82 | 112 | 0.0000000 |
| 6 | g9649.t3 | ProSiteProfiles | PS50290 | Phosphatidylinositol 3- and 4-kinases family profile. | 1 | 113 | 9.1350000 |
| 7 | g9649.t3 | ProSiteProfiles | PS51190 | FATC domain profile. | 81 | 113 | 12.1830000 |
| 5 | g9649.t3 | SMART | SM01343 | FATC_2 | 81 | 113 | 0.0000003 |
| 4 | g9649.t3 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 1 | 51 | 0.0000000 |
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:0005515 | protein 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.
