GgaINT1021588 @ galGal4
Intron Retention
Gene
ENSGALG00000006121 | PIK3C2A
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:HGNC Symbol;Acc:HGNC:8971]
Coordinates
chr5:11144466-11145709:-
Coord C1 exon
chr5:11145502-11145709
Coord A exon
chr5:11144591-11145501
Coord C2 exon
chr5:11144466-11144590
Length
911 bp
Sequences
Splice sites
5' ss Seq
TACGTAAGT
5' ss Score
9.27
3' ss Seq
TTAATGTGCATTTTTGGCAGATA
3' ss Score
7.45
Exon sequences
Seq C1 exon
GTTGATTGAATCCAGTCTGGGAAGTGTTGCCACAAAGTTCAACTTCTTTATTCATAACTTGGCTCAGCTGCGTTTCTCAGGACTACCTTCTAATGATGAACCCATCCTCTCATTTTCTGCTAAAACATATTCTCTTAAACAAGATGGCCGCATCAAACAGGTGTCTGTATTTACATATCAGAAGAGATACAATCCAGATAAGCATTAC
Seq A exon
GTAAGTATGTGGAATCTGTTTTTGCACTCAATGCAACCATATTCTTTCCCATTTTTTTTTCTGTTGCTGTTTGTTGTCTTGGATTGGTCAACCCCAAGCTCAATTTTCCTCAAGTTGTTTTAAAAAGTGAGCTAATGTATATCTGTTTCCAAGTTGTTTTTGCTGCAAATGACCTAATCTGGCAGACACCAATTAGGTAAGGTAAAGCTTACAGAACAAAAGAAAAGCTTTATATGGAATTGCTGCATTATGAATGTATTTGAGTACTCCAGTTCTAAGCCAAAGCAGTGTTTGATCTTCCAGGAAACTGCTGAGGTAATGGAACATCCTTCTGTTTAGTTGCACATTTTAAAAATACACATTTGACTCATTTATGAGTTCACTGAACTTAATTTTCTGTGCAATTTCTCAGCTTTCATTTTTCCTTTCTTAATGAGATGAATAACTGAGTCCTGGGGATGCATCTCAAGCATTTGAAAGATTTCCTTTTATATAAGGCAATGTATGTACGTTTGTCTATCAAGCTGTTGCTTTGAGAGTCTGGACCTGTAAATATTCACAGTAGTTCCAGCTGTGTCTAGATGTATTACATTTTGTACACCTGATACAGAGTATGAACTTAAAATGAGGCTTAAAATGGAGAATGCTGACAGCTTAGCCTTAACTGCTTTTATCTCATTGTCAGATGTAGAGCTGCTTTATGGGAAAATCATGTAATGTTACTTTGCAGTAACATTTCAGTAGGGTGATTTATAATTCAAACTTCAATATGAAATGCAAACACTGGAAAATTTATGTAGGAGAAAGATTACCAGAGTAGAAAAAATTGAATGTTTAAAAAAGAACAGTATTTAAGTAAATTCTTTAACATTACTACTACTTTCTATCTTTTTAATGTGCATTTTTGGCAG
Seq C2 exon
ATATATGTGGTGAGAGTTTTGAGAGAAGGACAAGCTGAGCCAACTTTTGTTTTCCGAACATTTGATGAGTTCCAGGAACTCCACAACAAACTTGGCATTCTTTTTCCACTTTGGAAGTTACCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006121:ENSGALT00000009877:28
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:
PF0078719=PX=PU(17.7=28.6)
A:
NA
C2:
PF0078719=PX=FE(36.3=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:
TGAATCCAGTCTGGGAAGTGT
R:
CCTGGTAACTTCCAAAGTGGA
Band lengths:
327-1238
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]