RnoINT0111286 @ rn6
Intron Retention
Gene
ENSRNOG00000029938 | Pik3c2b
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 beta [Source:RGD Symbol;Acc:1306541]
Coordinates
chr13:49907313-49908350:+
Coord C1 exon
chr13:49907313-49907441
Coord A exon
chr13:49907442-49908161
Coord C2 exon
chr13:49908162-49908350
Length
720 bp
Sequences
Splice sites
5' ss Seq
ATGGTGTGT
5' ss Score
4.84
3' ss Seq
CACGCTGCCCACGTCTGCAGTTG
3' ss Score
6.95
Exon sequences
Seq C1 exon
CAACCGCTCCAGGATGGCAGTGACCCTGACCCATATGTAAAGATTTACCTCCTTCCTGACCCTCAGAAAGCCACAAAGAGGAAAACCAAAGTAGCCCGGAAAACCTGCAACCCTACCTACAATGAGATG
Seq A exon
GTGTGTGGGGAATGAGTTGCTCGGGGTGGGCAAGGGGTCCGCAAACTGCTTCTTTGATGGTTTATTTATTTGGGTTCCTGAGACTCAGACACCATATGTAACTGAGGCTGGCCTCAAATTCCTGCTCCTCCTGCCCCTGCCTCCTGAGTGCTAGGATTCTAGGGGTGTGCCACAGGGCACCTGGCAACCAACCATCCATTCTCAGGTAGCAACTTTATAAGAACGCTGCCTCCCGGTCAGGGACGGCCTTGAGAACTGTGGTATGGACTGTACTTTTTCTTTTGTTTTTACACATTGGTTTTATTTGTGTATAAATGTGCCCGTGGTTGTCAGAAGATCGAATCTATTCCCCTGGATTTACGGGCAGTTTTGAGCTTTTAGACAGCAAGCACCTCTTAACCATTTATTTGTTTATCCAGCCCCCATGTAGTCATACCTGCCCCCTTTTCCCTTTACGAGGGCAGCTTTTAAACCCTTAGGGTTGTGATTCTTGGAACTTGGGCCCTAATATATGCACAGGGGGAGCCTGCTGCCCCGTATGGAGGATGAACAGAAGCTCCAATAGATATAATCCCAGCATTTGGGAGGCATAGGCAGGATTGCTCTGAGTTCCAGGCCTGCCGGAGCTACGTGTTACCTTAGGGCCTGGAACATCTCTTTCTGAATTCCCCGCAACTCATAGCTTGCCTGCCTCTCTTCTCACGCTGCCCACGTCTGCAG
Seq C2 exon
TTGGTGTATGATGGGATTCCCAAGGGAGACCTACAACAGCGGGAGCTCCAGTTGAGTGTGCTAAGTGAGCAAGGATTTTGGGAGAACGTGCTTCTCGGGGAGGTGCACATCCGCCTTCGGGAGCTGGACCTGGCCCAGGAGAAGACCGGCTGGTTTGCACTGGGATCTCGAGGTCATGGAACCTTATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000029938:ENSRNOT00000042125:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.163 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0016825=C2=FE(46.7=100)
A:
NA
C2:
PF0016825=C2=PD(38.9=55.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACCGCTCCAGGATGGC
R:
TCATAAGGTTCCATGACCTCGAGA
Band lengths:
318-1038
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]