RnoINT0111248 @ rn6
Intron Retention
Gene
ENSRNOG00000020479 | Pik3c2a
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:RGD Symbol;Acc:1310389]
Coordinates
chr1:185315145-185317183:+
Coord C1 exon
chr1:185315145-185315254
Coord A exon
chr1:185315255-185316975
Coord C2 exon
chr1:185316976-185317183
Length
1721 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGG
5' ss Score
7.37
3' ss Seq
AGTTTCTGATTATTTTTTAGGCT
3' ss Score
7.87
Exon sequences
Seq C1 exon
ATGATTCCTTCAGGATTGCCAGAACTTACAAGTATTCAGGATTTGAAATATGTTAGAGATGCACTTCAGCCCCAAACTACAGATGCTGAAGCTACTATTTTCTTTACTAG
Seq A exon
GTATGGCATGTTTAATTGTATCAAAAGTCTTCTGTGACAGAAGACTGGGGATATAGCTCAGAGGTAGAGTGCTTATCCTCTCCTGTAAGGTCCTGGGTGGTTGTTCACCAGCACTGAAAGAAAAACACTAAAAGTTGCTGCAGCAGTGCTTACAGAATGTTATTCCTCTCATCTCAAAGTGCAATCTCTGCTTTTTAGTACATGATTTCCACTGGATGACTCTTGCTTATAAACATATTTCTTTCTTTCTTTTTTTCTATTCTTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTGCTAGGCAAGCGCTCTACCACTGAGCCAAATCCCCAATCCAAACATATTTCTAAGAAACATGTTTTCCACAGTAATGGTAATGTGCTTCTTTGAAGGTTTCTTTCTGAGACGATTTCTTTTTTTCAAGATTGTACCATAATAGTTTCTATGGATACCACAACCCAGCAAGAGACTCTGATTCACAAAGGCTGTACGTTATTGCTTCATGCTAGTATGGGAAGTACATGCCAGGAATGGCGAGCACTTGACTATCATTTTTGCTTTCAGTAAAAATAGATCTTGGCAAAGGTGTTCTAAAGATCCAGCGACCATGTTCACTGAATTCTGTTATGTCTTCTGGGCAGGGAGCTCAGTTCCCACCCCCAGCCCCTGCCCCACTTTCTTCCTCTCAGTAGAGAGGAGGTATGAAACACTGGCCCAGTCTTTCCTAAAATCAAGTTTGGCTGAAATGAAGGAAACTAACTTTTCAATGCTTCCCAACTTAATAAACCAATTTTGGTGTTTATAGTTTTTATTGTGATTGTTGTTTCCCTCAATTGAGGCTGGGGGCCAAACACAGGGCTTTCAAGCATTTTACTACTGAGCTAAACTCTCAGTCTTTTTGGGTTTTGTTCTACCGAACTACATCTTAGACCTTAAATGTGTTTCTGGGTCTTGTTCCTCTGGTGACCTAAATATGTAATCTGGCCTTCCTTACAAAATGCTTCTACAAATTCCACCATTTCAAAATTTCTTTTCCTAATTAAGTATGATCATGATTATCTGATGGAATCTTGTCAACAGATTCCTCCATGCTGCTTAATAAATTTTTTTTGAAATGTGAATTAAAATAGTAGTCATCTTTTCAGTAATACATTAATCATATTCCAGTTCTGTAGCTCTTTGGTCTTGGACCCTATATAGCTCAAGAAATCCAAATATTATTTCTTTTTTTTTTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTACGTTTGCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCCAAATATTATTTCTTTATATTGGAATGAGATGCATTTTAACAGATTTTCTTTGGCCCAAAGAAAAAGAGATTCCTTGGCAGAGAAAAAAAAATCTACTTAATACTTTACTTTTTTAAGAACATTGTTATTATCTCTTCTGTGTGTGGTGTATGTGGCCTGCTTGTAAAACAGGTAGAGGATAATAATGTACAAGGAGTCAGTTCACTCCTACAATGTAGGTCCTGGAGATTAGACTTAGATCCTCAGGCTTGGTGACAAATCCCCTAACCTGCTGTGCCATCCCCCAGAGCCTGCTCTTAATATTTTAAAAGGAAGTGGTTGTCATCTTTTATTATCTTAAATTTAACATATGTTCCATGAAAACTTAACTATTAACAAGTTTCTGATTATTTTTTAG
Seq C2 exon
GCTGATTGAGTCAAGTTTGGGAAGCATTGCCACAAAGTTTAATTTCTTCATTCATAACCTTGCTCAGCTACGTTTTTCTGGCCTTCCTTCTAATGATGAGCCCATCCTTTCATTTTCACCAAAAACATACTCCTTTAGACAAGACGGCCGGATCAAAGAAGTCTCTGTTTTCACATATCATAAGAAATACAACCCAGATAAACACTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020479:ENSRNOT00000055120:27
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=PD(4.6=27.0)
A:
NA
C2:
PF0078719=PX=PU(17.7=28.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGATTCCTTCAGGATTGCCAGA
R:
ATGTGAAAACAGAGACTTCTTTGAT
Band lengths:
286-2007
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]