MmuINT0119727 @ mm9
Intron Retention
Gene
ENSMUSG00000026447 | Pik3c2b
Description
phosphoinositide-3-kinase, class 2, beta polypeptide [Source:MGI Symbol;Acc:MGI:2685045]
Coordinates
chr1:135001564-135005265:+
Coord C1 exon
chr1:135001564-135001692
Coord A exon
chr1:135001693-135002549
Coord C2 exon
chr1:135002550-135005265
Length
857 bp
Sequences
Splice sites
5' ss Seq
ATGGTGTGT
5' ss Score
4.84
3' ss Seq
CCCAATGCCCATGCTTGCAGCTG
3' ss Score
6.25
Exon sequences
Seq C1 exon
CAACCGCTCCAGGATGGCAATGACCCTGACCCCTATGTAAAGATTTACCTCCTTCCTGACCCTCAGAAAACCACAAAGAGGAAAACCAAGGTGGCCCGGAAAACCTGCAACCCTACCTACAATGAGATG
Seq A exon
GTGTGTGGAAAATGGGGGTGTGAAGGGTAGGCAGGGTCTTAAGCCGCTTTTTGGATGATTTATTTATTTATTTGGGTTTTCGAGACTCAAGCTCCATGGGTAGCCAAGGCTGGCCTCAAATTCCTGCTCCTCCTGCGTGCTGGGGTTCTAGAGGGGTGCCGCAGGACACCTGGCAACCAGCCGTCCCTTCTTATAAGTTAGTCACACTTGCTCATTGCTACCTTCTGCTCAGTGACGGCCTTGGCAATTGTGATATGAACTGTGCTTTTTCTTTTTAATAAATGTGCCCATGATTTCCAGAAGAGGGAATCTGATCCACTGGAGTTACAGGCAGTTTCGAATTTTGAGACAGCAAGCATTTTTTTTTCAAAGATTTATCTATTTAGTTTATGTGAGTACACCATAGCTGTTTTCAGACACACCACAAGAGGGCATCTGATCCCATTACAGATGGTTGTGAGCTCAGGACCTCTGGAAAAGCAGTCTGTGCTCTTAACCTCTGAGCCATCTCTCCAGTCCCAACAGCAAGCACTCTTAAGCACCTATCTGCTTATCCAGTCCCCATGTATTTATACCTGCCCCTTTCCTTTTATGATGACAGCTTTTAAACCCTTAGAGTTGCAATTCCCCAGATGGGACTTGGGCCCTAATAATATGAGGAGGAGGGAGCCTGCTGCCCTGTATGGAGAATGATCAGAAGCTCCAATAAATATAATCCCAGCATTTGAGAGGCACGGGCAGGATTGCTGAGAGTTCCAGGCCGGCCTGGGCTACATGCTACCCTAGGGACTGGAGCATCTCTTTCTGAGTTCCCTGTGTCTCACGCTCGCCTCTCTTCCCAATGCCCATGCTTGCAG
Seq C2 exon
CTGGTATATGATGGGATCCCCAAGGGAGACCTGCAGCAGCGGGAGCTACAGTTGAGTGTGCTGAGTGAGCAAGGATTTTGGGAGAATCTGCTTCTCGGGGAGGTGCACATCCGCCTTCGGGAGCTGGACCTGGCCCAGGAGAAGACCGGCTGGTTTGGACTGGGTTCTCGAGGTCATGGAACCTAATGAACCCACTCCTGGCCCAGACCTGCGGCTGCGGCCCAGAGCTGGAAGAGAAGCCTCTACCCCACCTAACTCCTTTGCTAGGAAGGAGCAGAACCCTCGGTGGCCTTCCCCACGCACGGTCCATGTGGACCTGACCTCCGTGAGGGGGCTGGAAGAGTCAAGCGCTATCCACTGCCCCTTCCTCCGCAGGCTGCACTGGGGTGGGTTGTGCTGAACAGCCCCCCTCTCCTGCCCCCAGAAGCTGTGGGCTTGCAGCAGAGTTTTATGTTTACCTTGTGTCAAGGGAGCAATGCCTGCTTTGGGGTATGTGGAGTGCGGGCTATATGAAGTAGCACTTAGAAAGGGAGGGTGGGTGGATATTTTATTTTTATTTTTAAAAAATGAAATAGTAATGTTGTCCTAACTGGGACAGGAAGCTTTGTGTGAGAGGGGCCTGCCATGCCTGGGAAGGCAAAAGAGAAAGACTATTTGGTTTTTGGGTTTTGTTTTTTTTGTTTTGGTTTGGTTTGGTTTGGTTTTTTGTATGATGAGAGTTCTTATTGGACTTTTTCTCCAGGATTTTTGGGGGTTTGTTTTCTAGCTATAGGAAATATCGGGGAGGGCCCCGGTGGGTCCTCAATAAAGCCCTCCCTCTCTCGGGCATACTGGGGAGGGGTGGGGAGGACTAACTGACAGCCGGACTGACGCCCACTCTGGGCCATCTGATTTTGCCTCCAAAGGAGGGCATCGTGAAAACTACATGTGTAAGGAAGGGCCTTCCATTGTAGAGTTCCGCCAAGGACCTAGATTCAGGGACCTGTGCTCTTTAGGGCAAAGTGTTTCCTCTCCTCTTCCCCCTCTGCTTGGACTCAGCTCAGGCGCCTTCCTGTCCCCTCTACCCCTGTGTTCTCTCGGCCCGCTATGGGTCACCCCGTCCTGGAGAATGCACTGGGGTGCTTCTGTGCCCCATCTTGTTTGATGGGATAAAATGCTGCTACCCCTCAGCTCTAGCCACGCCTGTAGGGCAGGCACGTCGTGCCATTTGCTGCAGCTTCTGGGAAATGTCCCCTGAGACCGTCTACTACTTTCTCTTCAAACCCTGTTTCTGTCACACTTTAAAAAGAGCTTCATTCTGTAGGGTCACAAAGCTGTATAGGGCATAGACAAAGAGATGCCCAACCCATAGCAGAGTGGGCTGGAGTGAGCCCTGGTCAATGCAGTTGTTTCTTCTGGATATTTTCCTGGCTGGATTGGAGCAGCTTCCTCTTTGGAAAACAAACAAAAGATTATTTCAACCTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCCTCCTTCCTTCCCTCAAGACAGGGTTTCTCTGTGTAGCCCTGGCTGCCTTGGAACATAGAGGTCCATCTGCCTCTGCCTCCCAAGTGTTGGGATTAAAGACATTTGCCGCCACCATCTCCTGGCTTATTTGGCTTCCTTATGTGGTGCTAGGGATCAAACCCAGGACCCTTTGAGTGCCAGGCAAGCCCTGCACCGCACCACCAAGCTTCGTCTCCAGTCCACCTTGCGTTCTTCCTTTCTCACCCTTCTCTCTCTTGGGTTTCCAAAGAGTTGTCTCGTCTTAAAGGTAACAGCTAGGGACTCTGTTTAACTTTTTATGTTTTTTTTTTTAAGACAGTGTCTCACTATGTAGAGCAGGCTGGCCTTGAACTCATAGAACTCTGCCTGCCTCTGCCTCTATACGGGAACTAACTTTTAAATGAAGAGTTAGCAAGGACAAGGCAAATAGTTTCTCTGTGACCCCATTTCTGGAGAGAGAAAAGCTCCATTGAAGCCACATGGAAACAAGAAAGGTGTTTGTTTTGTTGTTGTTTATTTTGCTTCTGGTTTTTAATTTTTTTTTTTTTTTTTTTTTATGAGAGAGGGTATCATATAGCCCAGGTTGGCCTCAAACTCCTATGTAGATAAGGATAGTCTTAAGCTCCTGACCTACTTGCCTTTCCAACTCACAGGTGCTAAGATTACAGACATGAGCTGCCCCATCCATTTTCTCCTTAATTTAAAATGACAGGCCAGTGAGGTGGCTCAGGACTTGCCTGGTCAACTTAAGTTTGATCACTGAGACCTTTAAGGTGGCGGGAGGCAACCAACTCCTACAAGTTAGTTTTTTTTTTTTTTTTGTCCTTCATATGCACTACACAACATGTGCACACACATACACACAGATAACATAATTTTAAAATGCCAAGGATAAAGCAGCCTGATGAAGGCAGGAGAGTAGAGCGGGAAAGCAATGGAACCTTCCAGATGTTTGGACCATAGACGAGCTGCTGGCTTTTTGCCTGCAGCTCATTTTCTTTTGACCCTTTATGTCTGACTTAAAGAGGTCTATGTACTGTACCCACTTCCCACACTCCTTTATCTTCTACTTTCTCTGGAATTGTATTTTTTAATAAACGACATTTGAGAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026447-Pik3c2b:NM_001099276:32
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.209 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0016825=C2=FE(46.7=100)
A:
NA
C2:
PF0016825=C2=PD(38.9=56.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACCTCCTTCCTGACCCTCAG
R:
AGCAAAGGAGTTAGGTGGGGT
Band lengths:
349-1206
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: