RnoINT0111279 @ rn6
Intron Retention
Gene
ENSRNOG00000029938 | Pik3c2b
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 beta [Source:RGD Symbol;Acc:1306541]
Coordinates
chr13:49901954-49903601:+
Coord C1 exon
chr13:49901954-49902063
Coord A exon
chr13:49902064-49903399
Coord C2 exon
chr13:49903400-49903601
Length
1336 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
GTTTTCCCACGCTCAAACAGGTT
3' ss Score
8.98
Exon sequences
Seq C1 exon
ATGTTGTCCTGTGGGATCCCCGAGCTCTCAGACCTGGAGGACCTCAAGTATGTGTATGATGCCCTGAGACCTCAGGACACGGAGGCCAATGCCACTACCTACTTCACAAG
Seq A exon
GTAACATGCAGCACAAACCAAGTAGTCCACAGGCTGCCAAGTTGGCAGCAGCAGGCCGAGCAGTGGGAAAGGCTTAGCCCAAATGTTAGGGCTACGGCTTTGATCTGCTATCCCTGTTTTACCTCCACGTAACCACTTTGTTCCTATCCGCAGTCTGAGGCTAATGTGTAAGCAGTCCTGGCTGTCCTGGAACTCACTCTGCAGACCAGGCTGGCCTTGGACTTAGAGATCCGTCTGCCTCTGCCTCCCAAATGCTGGGATTGAAGGCCTGCACCACCACTGCCTGTCTCTTATTCATGTTTTTACCAGGTCCCAAACAGAGACTTTGTCTAGGAGTCAAAGTGGAAGCTGGATTTTATTAAAAGGTTTTAGTTTTAGTTTTTCAAGACAGGATCTTTCTGTGTAGCCCTGGCTGTCCTGGAACCTGCCCCTGGAACCTGGCTGGCCTTGAAGGAACTCAGAAATACACCTGCCTCTGCTGGGGTTAAAAGTGTGTGTCGGGGCTGGGGATTTGGCTCAGTGGTAGAGTGCTTACCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAACCAAAAAAAAAAAAAAAAAAAAAAAAGTGTGTGTCATCACACCCTGTTTCGTTTTGTTTTTTTTTTTTAAGATTTATTTGTTTTTATTTATATGACTACACTGTAGCTGTCTTCAGACACACTAGAAGAGGGCATCGGATCCCATAACAGATGGTTGTGAGCTACTATGTAGTTGTTGAGAATTGAACTCAGGACCTCTGGAAGAGCGTTCAGTGCTCTTAACCGCTGAGCCATCTCTCCGGTTTATAATTGCTCTTTTGGTCAGACCCTTGCCCTTTCACCAGACCTCACTTAGAATTTAGTGTTTTTTGAGCAGTGCCTAGTGTGGGGGTCAGATAGGCTGTGCTCCTATTGAATTCCATTTGATAATATTATGTGGATATTTGCTGCCCCAAGTTCCCTCCTCCCTCAGCAGGAGGAATAGGACCTCAGGATTCACAGACATAAAGACTGCATGAGGTGATTTCACCAATGGTGCTCTGTGAGACTATTACAATGGAATGTAATTTGATCTGGTGGTTATTTTTAGGACTCAGGGCAGGGCATGGTAGCACACATCTGTAACCCTGGTACTTAGGAAACTGAGGCAAGACTATCACCATAAATTTGAGGCTGGGCTACACAGTGAGACCCTGGCCCCCTCCCCCAAAGGAAAAAAAATCTCAGAACTTGGAAGATCTGCTTGGGTAACTCTCAAGGCAAAGGGTGGTTGGGTCCTTGACTACATCCCTTGTTTTCCCACGCTCAAACAG
Seq C2 exon
GTTGATTGAGTCCAGCTTGGGCAGCGTAGCTACGAAACTCAACTTTTTCATCCACAACCTGGCTCAGATGAAGTTCACAGGCTCAGACGACCGGCTCACCCTCTCCTTTGCCCCCCGAACACATACTCTCAAGAGCTCTGGCCGCATCCGTGATGTCTTTCTCTGCCGACATGAGAAGGTCTTCCACCCTAGCAAGGGCTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000029938:ENSRNOT00000042125:25
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=PD(4.6=27.0)
A:
NA
C2:
PF0078719=PX=PU(17.7=29.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTTGTCCTGTGGGATCCCC
R:
CCTTGCTAGGGTGGAAGACCT
Band lengths:
307-1643
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]