RnoINT0111275 @ rn6
Intron Retention
Gene
ENSRNOG00000029938 | Pik3c2b
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 beta [Source:RGD Symbol;Acc:1306541]
Coordinates
chr13:49895940-49897127:+
Coord C1 exon
chr13:49895940-49896069
Coord A exon
chr13:49896070-49896990
Coord C2 exon
chr13:49896991-49897127
Length
921 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGC
5' ss Score
7.09
3' ss Seq
CCGACCCCTCTCTCTCTCAGGGA
3' ss Score
10.16
Exon sequences
Seq C1 exon
TGTGGAGATGACCTTCGCCAGGACATGCTCACCCTGCAGATGATTCGCATCATGAGCAAGATCTGGGTGCAGGAGGGGCTGGATATGCGCATGGTCATTTTCCGCTGCTTCTCCACTGGCCGAGGAAAAG
Seq A exon
GTCAGCGGGGAGTCGGGGCAGGGCATCCCTTCCCTCGCCGCTGCCTTCTGCCCGTTTCCCAACAGGAACAATGGAGACTAGAAGGGCAGGGTTATTCCATGAGAAGGTATGGGGTGGCTTGAAGAAAGAAAGGGAGAGACCGTTGCGAAACAAAACAAGAGTCGGAGGCATAGCAACCTCTGTGGACTTTGGATCTTGATCAAGCAACCAATTGTAGTTTTGGGATGGCTGTGAGAAATTTGAAAATCGGCTGGCTTCAAGGGCTGCTGGTTTTTTTTTGTTTTGTTTTGTTTTTTTTGTTGTTGTTGTTTTTTTTGTTTGTTTTTGTTTTTGGATATGACACATACATCATTATTGTGTTCTTGTTGATTACACTTAAAGTATCTATGCACGAGTTGGCACGTCTAAAACTGAGGGTGGTGACAATATGCCTGTGATCCCAGCTCTCAGCTGAGGTGCAGGATCAGAAGTTCAAGACCAACCTGGGCCACAGAGGGAATCCCTGCCTTGCTCTGTGGTACTCCAGCTAGAGTGGCAAGAAATAGGAAGCTCTAGCGGGGTAATGGAGGTGATAATGAGATTAGCTAAGTGTTGGCGGGCATTGAAGCTGGGTGGTGGTTACATGAGCATTGATCAAAACCAAAACCACCTTCGCTTTGGTCCTGTACATATTTAAGAGTTCCATAGTAAGATTTGAAAAGAGGAAATAAAAATAAAGAAACATTAGGAACTGCGGAAGCATGGAGCCAGTCTAGACTGGGTGGTGTAGGTGTGGTCGTCTGCCCATCACCCATCTTGTGTGTATCCTTCCTAGTAGCAGTCTTTGCCCGAGAGCCCCAGAACTTGGGAAGCATCTAGCCCAGCTGTGGTAGACTTCTTCCCTCTGCTCTGGAGCATAAGCCCGACCCCTCTCTCTCTCAG
Seq C2 exon
GGATGGTGGAGATGATACCCAATGCCGAGACACTGCGTAAGATCCAGGTGGAGCATGGGGTGACCGGCTCCTTCAAGGACCGTCCCCTGGCTGACTGGCTTCAGAAGCACAACCCTGGGGAGGATGAATATGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000029938:ENSRNOT00000042125:21
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=FE(19.9=100)
A:
NA
C2:
PF0045422=PI3_PI4_kinase=FE(20.8=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:
TGTGGAGATGACCTTCGCCAG
R:
TCATATTCATCCTCCCCAGGGT
Band lengths:
263-1184
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]