GgaINT1021583 @ galGal4
Intron Retention
Gene
ENSGALG00000006121 | PIK3C2A
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:HGNC Symbol;Acc:HGNC:8971]
Coordinates
chr5:11148683-11150506:-
Coord C1 exon
chr5:11150377-11150506
Coord A exon
chr5:11148820-11150376
Coord C2 exon
chr5:11148683-11148819
Length
1557 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCAA
5' ss Score
-0
3' ss Seq
TTGTTATATTTTATATGAAGGTA
3' ss Score
5.63
Exon sequences
Seq C1 exon
GTTGGAGAAGATCTGCGACAAGATATGTTGGCTTTACAGATGATTAAGATCATGGATAAGATCTGGCTGCAGGAGGGACTGGATCTACGGATGGTTATCTTCAAGTGTCTCTCAACTGGAAAGGATCGAG
Seq A exon
GTGCAACACCAGATGCTGCCTATTATTTTTGTGCTTGTCTTTCACCCTGCCCAAATTTTTGTCATGCTCACAGAGAAAATTTCTACTCAAAGGCAGGCTCAGGAAACACTGGAAAGCCAAAAGCCTTCCTTACAAGGAACTTCAGCACTCAAAAGTCTAGCATGTTGAATTGTCTGGAATTTCCTCATGGCAGAGTAGCATTTAAATGTTTCTTCTCAAGTCCTGAGATTTTTATGCATTCTACCGTAGACGAATAGTGGCACAAATGTCACAGTAAAAGGATAAGGTTTTTCCTGATATTCTTACTGTAGCACAGGAAATCAGTGGTGCAACAGCAATTTTGATTATGAAAGTTATTTATGGAGTGAGAAAATATTCAAGTCAAAACTGAAATTCCAAGGTATTTGGAATCTGCTGCAATTGAGTCAGGGAGCATAGAAATGTGCAAAAAGAAGAAAAACTAGACTTAATTCCTTTCCCACACCACTTCCAGAATTACTGTCTTGTGCTACTCAGAATTCCTTGGGATTATGAGGTTTTTATGTTAGTAACTTTAAAGTTACAGAACTCTGAGTATAAATACTGCCTCATGTCATGGACATGATTTATGCAAGTTAAGTCACTAATCCTCTACAGATAGCCAATAGGAAACACGGGATCTTTAAAGAGGGTCAGCACAAACTTATCTCTTCGGTCAGAACAGCATGATGAAAACTCCCAAACGTGTATGAAAGAGTTGAAAATTCAGGTTGATGAAACTATACCAAAAGCTTCAAATTATGAAAAGCTTTTGCTTCTTAAAGAAGCAGATGGCATTTCTTCCTACTTGGAGCGATGACTTGATTGCATAGCATGTTGCATTTTTTGTTGATACTAATACTAGTATCCCTAAAGTACTTGAAGGATTCAAGTGAAAAGTAAAAATAGACATAAATTGCAGATTTTCTCATAGTAGCTCTTGCCAAGATAGAATTCAAGCTGTTTTAGTAAAATGTTTTCTTTTTATGATCTAGCTCTACAAATATTTCTAGTAAATGATGTCTCCAAAATAAGACCACATGTAAATCCTATTTTGCCTTATTTATGAAGGCAGGCTGGTCTATTTCAACACTCACTGACTAGTAGAAGTTACTAGGCTGCTAGGCTGTGTCTTTGAGAAATGACAGTATCAAAATATTTTACAGTTATTAGTTATAGACCAATACTAGCTTATGTACTAGAGAGTTTGTAGTTATAGACCAATACTAGTTTATGTACTAGAGAGTAATTAGGTGGTAATGCTTTGAGTAAAAGTATAATATATGTGTGTATTTAAACAACCATAACTAGTTGTAATAAAGTAAACCTAAATTGAATCTCTATGTGCTTCATGGCAAAGCATTGTAATGTAGTTTGCAGAAATGCTTCATAGACTAATAGCACTTTTTACATCTAGCTGGATTTTGAAATAAGCTAATCTTAAATTATGAAATCAATCACTGTCAATAAACTTCATACCAAATAGTGAAAATGCACTATAACTTATGGAGATGATGTTTTGTTATATTTTATATGAAG
Seq C2 exon
GTATGGTAGAACTTGTTCCTGCATCGGAAACACTTAGGAAAATTCAAGTGGAATATGGAGTGACAGGTTCTTTTAAAGACAAGCCTCTGGCAGAATGGTTGCGAAAGTATAATCCTACAGAGGAGGAATACGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006121:ENSGALT00000009877:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0045422=PI3_PI4_kinase=FE(19.9=100)
A:
NA
C2:
PF0045422=PI3_PI4_kinase=FE(20.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGAAGATCTGCGACAAGA
R:
CTTTTCGTATTCCTCCTCTGTAGG
Band lengths:
265-1822
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]