RnoINT0111246 @ rn6
Intron Retention
Gene
ENSRNOG00000020479 | Pik3c2a
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:RGD Symbol;Acc:1310389]
Coordinates
chr1:185313448-185314514:+
Coord C1 exon
chr1:185313448-185313617
Coord A exon
chr1:185313618-185314357
Coord C2 exon
chr1:185314358-185314514
Length
740 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTA
5' ss Score
7.52
3' ss Seq
TTTCTGTGTGCTTTCAACAGGGA
3' ss Score
10.94
Exon sequences
Seq C1 exon
GCTTCTGAGAACTTTATCTACTCTTGTGCTGGGTGCTGTGTAGCCACTTATGTTTTAGGCATTTGTGATCGGCACAATGACAATATAATGCTTCGAAGCACAGGACACATGTTCCACATTGACTTTGGAAAGTTTTTGGGCCATGCACAGATGTTTGGTAGCTTCAAAAG
Seq A exon
GTACTAATGTTTTTATTACTATCACTGAAGGACATGTCCCAGGCCTTGTTCTTGCTGTGCTTTGCCTGTGTCTCCTTTTGAAGATAACGGGGAATAAAAAGACCTTAAGAAATGATCCTTTTTGTTGTTGTTGTTTAAGATAGATTTATGTATGTATGTATTTATTATAATCACACTGTAGCGATCTTCAGACACACCAGAAGAGGACATCAGATTTCATTACAGATGGTTTTGAGCCACCATGTGGTTTCTGGGATTTGAACTCAGGACCTTTGGAAAAGCAATCAGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCAAGAGATGATCTTACCACACAGTAGACAAAACCAGTTTGCGTCTAAACTTTGTTGAAATAAATGGACATATATTCTGTTTCATCTAGTTCATGGTGCCTGCTACAGATGGTTTCATTTGTATAATGGTAATGAGTATAAATTCTCCTCTACATATTTTGGTAACCACTGTTGAATCTATCTTTGAGGATATTGATTTATAAGTAATCACTTTTGTGAAAATTTCATATTTAAGTTCTGTCCAATGATGAAGTTTTCCTCAAAATGTGAATTTTCAAGGATTATGGAAATGCAAAAACGTTTGCTGTTTCCTATTTGAAAATTGTTATAGCTCACATTGCTTCATTTAATAAATTTTAACAGCAGTGGCACCATTTATTTTGTGTGCATCTGTAAATATGCTTTCTGTGTGCTTTCAACAG
Seq C2 exon
GGACCGCGCTCCTTTCGTGCTTACCTCTGACATGGCCTATGTCATTAATGGAGGTGAAAAGCCCACCATTCGTTTCCAGTTGTTTGTGGACCTCTGCTGTCAAGCCTACAACTTGATAAGAAAGCAAACAAACCTCTTTCTTAACCTTCTCTCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020479:ENSRNOT00000055120:25
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(25.9=100)
A:
NA
C2:
PF0045422=PI3_PI4_kinase=FE(24.1=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:
GCTTCTGAGAACTTTATCTACTCTTG
R:
CAGTGAGAGAAGGTTAAGAAAGAGGT
Band lengths:
327-1067
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]