RnoINT0111284 @ rn6
Intron Retention
Gene
ENSRNOG00000029938 | Pik3c2b
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 beta [Source:RGD Symbol;Acc:1306541]
Coordinates
chr13:49873194-49874217:+
Coord C1 exon
chr13:49873194-49873294
Coord A exon
chr13:49873295-49874062
Coord C2 exon
chr13:49874063-49874217
Length
768 bp
Sequences
Splice sites
5' ss Seq
TATGTAAGA
5' ss Score
3.54
3' ss Seq
CTTCCTTTCTTCCTATACAGCCT
3' ss Score
10.48
Exon sequences
Seq C1 exon
GTGAGCTCTCGGACCCACACTGTCACCAATGGCCATGAATTGTTTGAGGTCTCAGAGGAGAGAGATGAGGAAGTTGCTGCGTTCTGCCACATGCTAGATAT
Seq A exon
GTAAGAACTGAGGATGTGATGGGGGCTGGGTGCGTGTGAGCGTGCGTGTTTGGGGAGGTTGGAGTCTGGGTCTCTAGAGGAAGCTACCTCATCCTTTAGGAAGGAGGAAGAGCTATAGTAAATAAAATTCCAGAGTGGGACCCTTCTCTAGCAGATGTCTGCAGGTTTTTATGAAATCTTAGAAGTTTGCTGGGTGTGGTGGCACAGCCCTTGGGATGCAGAGGCAGGTGGATCTCTCTGAGTTTCAGGCCAGCCTGGTCTACATAGCAAGTTCCAGGCCTGCCAAGGCTACATAGTGATACTCTGTCTCAGAAAACAAAACAAAGCAAAACAAAAAAATCCTTTCACATTTTTAGTAAAATTCACAAGCCTTGGTCAGCCTATTGTCCTCCCACTTCAGGCCCTTGACCCTCAGGTGCTGTTAGGAGCAAACATATCTCTCAGTGAAGGAAAAAACATCTTTTGTACAGAAGAGGAAGGAAATAGATTTCCAACTACTTATTGGTTAAATCCTTTTAAACTAAGTGTAGGAAACTCCTTTTGGAGCTCTTACTACTGTCACACAGTGAGGATTGGTTTGTGACTGTAACAGAGATGACCAGAAAGACTACAGCTTCCCTGGGCTGCCATCCCACTGCCCCGGCTTAGCCCACAGATCAGAGGGCTAAGCTGAATAGAGATAGAAAAGCCATTGGCCTATGGGTGGGAGGGACCCTGCCCACCCTGTGAAGACACAACAGCAAGAGTCCTTCCTTTCTTCCTATACAG
Seq C2 exon
CCTGCGCACGGGCTCTGATACCCAGGACTATTCCCTAACTGGGTGTGTCTGGAGCACTGTCACCCCGAGCCCAGAGCACCTTGGGGATGAGGTCAACCTGAAGGTGACTGTGTTGTGTGACAGTCTTCGGGAGCCACTCACCTTTACCTGCAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000029938:ENSRNOT00000042125:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.399 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0079413=PI3K_rbd=PU(32.0=62.3)
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:
GTGAGCTCTCGGACCCACA
R:
TTGCAGGTAAAGGTGAGTGGC
Band lengths:
254-1022
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]