RnoINT0111263 @ rn6
Intron Retention
Gene
ENSRNOG00000029938 | Pik3c2b
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 beta [Source:RGD Symbol;Acc:1306541]
Coordinates
chr13:49882751-49884374:+
Coord C1 exon
chr13:49882751-49882944
Coord A exon
chr13:49882945-49884251
Coord C2 exon
chr13:49884252-49884374
Length
1307 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CCACTCTGATTGCTTTGTAGCTA
3' ss Score
7.26
Exon sequences
Seq C1 exon
AAGGTGGTAGAAGCCTTGACAGCAGCCATCTTGGACTTAGTGGAGCTGTACTGCAGCACATTCAATGCAGACTTCCAGACAGCCGTACCTGGGAGCCGAAAGCATGATTTGGTTCAAGAGGCCTGCCACTTCTCTGGGGCCCTGGCCTTCACTGTCTATGGCACTCACCGTATTCCCATCATCTGGGCTACCAG
Seq A exon
GTGAGTCAGAGCTGGGAGGCCCAAGTGAAGGGGGTGGGGCTGACTGTGGCCCTCCATCTTAGGATGGTTGTTCTTGTGTGGCATTCTGGAACCACGGGGCTAAGGGGGATGAGCCCAGTACCTGGAGGGACCCTTAGGCTGTATCCATCTCAGAGAGTGAAAGTCCCCTTAGGAGATAGATAAGCACTTGCCAGTCCTCCAGCCCTGGCTGCCTCAGCCTCTCTGCCCCCTCCAGATCCAAAGCCAGCTGAGGGAGACAAGTGACAGATGGCTAGTTCCCAGATAGAGTGTGGCCCTCACCAATGGCTGCACTCCCCTGCAGATGCACAATGAGGGTGGTGGGGAGGGGATGACCCTTTGTCTGGGGTTCCCTTGCAGGATGGGAGGAGGAGGACATCCATTTGGTAGTCCTCAGCTCTTCCTCTGGGTCTCCAGAGTCCTGGGGCCTGGGGGGAATAGGCATTTGGCCCCGTCCCACCCTTACCGACCCCTCCCCCCTCTTCTCCCTTCCCCTCCTTTCTTTGTTTCTCCCTTAATGTATTCCTCTGGGCGATTGGCATAGAACAAAGGAGGCAGCCTGGGAAACAGGGGCCTTCTCTGACCTCTTCTGTCAGGCACCTGTCATGAGCCACAGGAACCCCCATGTGCTGGTATTCACAGCAGCATATGTCGTTTTCTTTCCCCACCCTCCTTGCCTGCACACACACACACACACACACACACACACAGACACACACACACACACCCCGGTGTGTGCTTGTGTGCTGCACTGGATAGGCCAGAACTGACTATAAGAGGCTAGACCGCGGGGCTGGGGATTTAGCTCAGTGGTAGAGCGCTTACCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAACCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAGGCTAGACCGCCATTCCCATGAAATGACAAAGAAAAAAAAAATTCCTATACTCACCATGGGCCTAAAACTCAGGGGTCTAGGGATCCCGATTGAAGAGGCTAGACCGCCATTCCCATGAAATGACAAAGAAAAAAAAAATTCCTATACTCACCATGGGCCTAAAACTCAGGGGTCTAGGGATCCCGATTGAGCTGCTGTTCCTAAGCCCACTTCCTTAAGCCTGGTTTGGTTGTCCTACCCTGACCCCATGTTGCATCCTCCAGAGATCAAGAGAAGTAAGTCTACCGGAGGAAATGGAAGCTGGCAGCAGGGTGGCTGAGGTTGGTTTTAAGGGCAGCTGTACTGGTCCTGACCCACTCTGATTGCTTTGTAG
Seq C2 exon
CTATGAAGAGTTCTACCTCTCCTGCTCCCTCAGCCACGGTGGCAAGGAACTTTGCAGCCCTCTGCAGACCCGGCGGGCTCACTTCTCCAAGTACCTGTTCCACCTCATCATCTGGGACCAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000029938:ENSRNOT00000042125:10
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:
PF0079219=PI3K_C2=PU(0.1=0.0)
A:
NA
C2:
PF0079219=PI3K_C2=PU(29.1=97.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGGTAGAAGCCTTGACAGC
R:
GGTCCCAGATGATGAGGTGGA
Band lengths:
311-1618
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]