RnoINT0111281 @ rn6
Intron Retention
Gene
ENSRNOG00000029938 | Pik3c2b
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 beta [Source:RGD Symbol;Acc:1306541]
Coordinates
chr13:49903992-49905006:+
Coord C1 exon
chr13:49903992-49904116
Coord A exon
chr13:49904117-49904888
Coord C2 exon
chr13:49904889-49905006
Length
772 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCC
5' ss Score
7.13
3' ss Seq
TTCTCTGCCTTTCACTCTAGCTT
3' ss Score
9.58
Exon sequences
Seq C1 exon
ATCTATGTGGTGAAGGTGATGCGAGAGAACGCTCACGAGGCAACCTACATCCAGAGGACGTTCGAGGAGTTCCAGGAACTGCACAATAAGCTGCGCCTGCTCTTCCCTTCCTCCTTCCTGCCCAG
Seq A exon
GTAGCCCCTCTCCCCTAGTCCTACCAGAGCTGAAAGATACAGGGGAAGGAGGAGGGAGGGCTCCTGTTTCAGAAAGAACCATTTCAAACTGAGGAGCTGTCTGCCTGGTGTTGGGCTTGGTAACAGGTGCGCCCCCTGCTGGCTGGTATCACCAGCCATCCAAACCACCTTGTTCTCTCTAGAGCCTTGGAAAACAAAACATGGGAGCACCAGCCAGAAAGCAAGCCAGCTGAGCTGAAAGCAGGACACTGGGTGAATCTGACATATGACTCAAAGAAGGACCTTTGATAGCTGTGTGATTAATGAGCCTAAATGAAATATGCCAAGCACGAGATGATTCTATTTATTGGAGTCCCCTAGAGTAATCAGAGTCATGTAGACAGAACGCAGAATTGGTGGTGAGGTGTATAGCAAGTGGGCTGCTTCAGTTTTGCCAGTTGGAAAGAGCTCTGGACCTGGCTTTTGGAGGTGTTTATGCTACAGGGTGAATGTATTCAATGCCATCGAACCATAAACAGAAGTCTTAAAATGCCGGATGGTAAAAATACTAGAATTCTCTGAGGTCCTAGGAAGTAAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTACATACAGAGAAAGAGATAGAGTAGGAGTCAGGGAGGCAAGGGTCCCCCAGAAGAGAAGCTGCTGGATCAGGTAACTAGAAGTGGAAGTGAAATATCTGAACCTTCATATTTACTTCCTGTCCCTGGGCCCTTTCTCTGCCTTTCACTCTAG
Seq C2 exon
CTTCCCTAGTCGGTTTGTGATTGGCCGCTCCCGGGGAGAGGCAGTGGCTGAGAGGCGGAAGGAGGAGCTAAATGGCTACATCTGGCACTTGATTCATGCAGCCCCTGAAGTGGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000029938:ENSRNOT00000042125:27
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:
PF0078719=PX=FE(36.3=100)
A:
NA
C2:
PF0078719=PX=FE(34.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTGGTGAAGGTGATGCGAG
R:
CTCAGCCACTTCAGGGGCT
Band lengths:
239-1011
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]