RnoINT0111291 @ rn6
Intron Retention
Gene
ENSRNOG00000029938 | Pik3c2b
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 beta [Source:RGD Symbol;Acc:1306541]
Coordinates
chr13:49878718-49880321:+
Coord C1 exon
chr13:49878718-49878781
Coord A exon
chr13:49878782-49880174
Coord C2 exon
chr13:49880175-49880321
Length
1393 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
CACTGTATGGTCTCCCACAGGGG
3' ss Score
8.75
Exon sequences
Seq C1 exon
GCAGGCCTTGAGTCTTCTGTTTGACACTTACCACAATGAGGTGGATGCCTTCCTACTGGCTGAA
Seq A exon
GTGAGTATACACCCTGGGACCAACCAGAGAGGAGCTACTAGAAGTTCCTTTCTTTCCTGCGATCAGTGGCATGCTGCCGGTGACGCCTCTTTTCACTCCCCTGGCTCTGGGCAAGCAAAACAACGTCTGGCAGTGAGGCAGCTGCCGAGTGTGTAAGAAGGTGTTCTGCCCTTCTGTGAAGGTCAGGAGGTGGGCTCTGACTGCTGCCTCTGGACTAGAGCAACTCCAAGCTAAGAGTTGTGGCCCAGGCCTTTTTTTACTGTCAGAAGTACCCAGGAACGCTGTCTTAAGATGTTCTATTGAGCCTGTGACATAGGTATCACACCCCCAGGAGAGTGGCAAGTCCCAAGACTAGATCCTTTTCCTCTTGAACCTACATAGAAGTGCGAGCCTTGGAACCATTTACCCAAATATCTTGAAGCAAAAGCAGAGTTCTTTGGAAGTGGTCTTCAAGATTCAAAACCCTCAGCAGGCACGGGGGCACACAACTTTAATTTCAGCACTTGGAAGGCAGGAACAGGCAGACCTCTCTGAGTTCAGGGTCTACCCAGTGAGTTCCAGGCCAGAGCTATTAGTGAAACCCTGTCTCAAAAAGCCAAGCAAAGTAACAATCCGGTCCCCTCAGACCAGTTTTCAATCATTCAATCATTCTTTCCTCTGAGGCGGTAAGTCTAGTACACCCTTCACACACTACTAGAATCTATTCTGTGGCAGCTTCTGCAACAACAGGGGCACTGATGAAAGTTCTTAGACCATTCTGTAGTGTCCTGTGCTAGTTTGGGGGTTGGGTAGAGGCGAGGGGGCACAGCCTAAGAATTGCTTTAGCCTCAGGGAGCTTGTGTGGTTAGAGAAACGGAATGTTCATCTAAAGCTATTAGATACAAGAGGATGACCAGGGAGGTTAGGGGCAGGGAGCTTGGTGAAGGAGTAGGTGTCCTAGTCCCTAATCCGAATGGACACAAGGAGTCACAGTCAGGCAGAGGAGGAAAGTTTTGATGAGAGATTACTGGGAGCCAAAATGTGGAGGGGAGGGGAGAGTGAAGCATGTCTGTGAATGCGAAGGCTTGACCTGGACAGTCTATGGTGAATTATGAGAAATCTGGGCAAGCGAGTGGGGCCTCACTGCGTTTCTCTCACCTGCCAACTGATTTCCTTTGGCGGAGACCTGTGTATGCTTGTGTAGCAGAAGTAGACGTCACTGCAAACTGGGAATAAAAGGTTCTGCCTCGCTGTGGCCGACAGACTGGAGAGAATGGATGTGGTCTACTCAAAGCAAACAAAGTGTGGTTCCTAGAATTCCTCCTTAGAGTCATTAGCTCCTGAATGGCCTTTAGGATTGGGCTTTGGGAGGCGGAGAGCTGAATCACTTGCCTCACTGTATGGTCTCCCACAG
Seq C2 exon
GGGGATTTCCCACTGAAGGCTGACAGGGTGGTCCAGTCTGTGAAGGCCATCTGCAATGCTCTGGCTGCTGTGGAGACTCCTGAGATCACGAGTGCTCTCAACCAGCTGCCTCCCTGCCCGTCACGAATGCAGCCGAAAATCCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000029938:ENSRNOT00000042125:8
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=0.047
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGGCCTTGAGTCTTCTGTT
R:
GGATTTTCGGCTGCATTCGTG
Band lengths:
206-1599
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]