MmuINT0032880 @ mm10
Intron Retention
Gene
ENSMUSG00000021279 | Cdc42bpb
Description
CDC42 binding protein kinase beta [Source:MGI Symbol;Acc:MGI:2136459]
Coordinates
chr12:111302014-111303911:-
Coord C1 exon
chr12:111303830-111303911
Coord A exon
chr12:111302231-111303829
Coord C2 exon
chr12:111302014-111302230
Length
1599 bp
Sequences
Splice sites
5' ss Seq
AGGGTATGA
5' ss Score
6.84
3' ss Seq
GTTTTGTTTTTCTCATGAAGGTG
3' ss Score
7.82
Exon sequences
Seq C1 exon
AGATGAGGAGTTTGCTGTGAGTTCAGTCCTGGCCTCAGATGTTATCCATGCTACACGCCGAGACATTCCGTGCATATTCAGG
Seq A exon
GTATGAGTCTCTCTGATTTTATTTCTGTCTGTTAATCATTTTAAAAGTAAATCACACTCTTAAGAGACAGTAATTCTTAAAAACAAAAACCATGGGCACAGTGGTCCACACCTTCAGTCCCAGTGTGTGGGAGCCAGGGGCAGCAGGTCTCTCTGAGTTCCAGGACATCCAGAGCTACATAGGGAGACCCTGGCCACCCACCCAAAAAAAGCAATTTTCTGAGCATTTTGCTACCCTGAATTTCCCAATGGACCCTCGCCTGCTTTATGTTCCCACCGTGCCCCAGGTGCCCCCTGCCTGGCTGCCCCTCACTGAGCAGCACGCTCTCCCCACACAGCCAGCTTCCCATGGTGCCCCTCTCTTCACCTGGTCGCCCTCCCACCCCAGCCACTGTGTCTTCACTGAAGGGACATTCCGTGGTGGGCCTGTGGGGCGCGTGTTGCTTTAGGTTCCCTCCCTGTCACCCAGACTCTTTTAAATTGATTACATTTGCTTTGTCCCTCTTCTCTGACTGGGTTGCTGTCCTCTGCTCTCCGGGCGAAGTTTCTGGAAGACATGGTCAGAGAGACACACACTGCTTCAGAGCAGACATTTTTCCCAGCCACAGAGCTGCGTCTGAGCATTGTTTGCACTGAATCACAGTGTGACTCAGAAACAGCCTTTGTATATAATCCAGAAAATCTGTGCTCAAAATGACATTCATCCTATAGCTGAGGGGTCTCCCGGGCTCCTAATGAATGGTCCTAGTGAACACTTACTGGACCCCTTCTGCCTTGGCATGCCCTGAGAGTCCTCATCTTTTTTTATTTATTATATGTGAGTACACTGTAGCTGTCTTCAGACACCAGAAGAGGGAATCAGGTCTTGTTACAGATGTTTGTGAGCCACCATGTGGTTGTTGGGATTTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAACCACCAAGCCATCTCCATCCCAAGAGTCCACATCATAATCAGAATAAAGCTATTAACAAAAGCAAAAAAAAAAAAAAAATTGAGAGAGGGTCTCTATTGGAGCTGTTGTGGAACTTCCACAGATCCTGCCACCTCTGGCTCCTGAGTGCTGGGGTCAAAAGCATGTGCCACCAGGCAGGGCAAGAAAGCAATTTTTTGTTTGTTTTTGTTTTCTAAGTCGGGGGTTTCTCTGTGTAACAAGCTTGCCCAGACCAGCCTGGCTTTGAACTCACAGAGATCTGCCTGCCTCTGCCTCCTGAGTGCTGGGATCAAAGTTGTGTGCCACCACACCCAGCCAAGAAAGCAATTTTTAAAAGTTTTTAAAGCATTTATACAATAGTGTTGACAAGAGCAGAATTAATTGAAATCTGGCCAGGAAGGGCCGGGATGTCTATGTTTGCAGGCCTGTCCCTTCCTGTCAGCTGCCCTGCCAGCAGCCTGGCCAGTTAAAGAGATGGGTGGTCTCTGGGACAACTCAGGGACATTGACGTGAGTCTCTAGACTTACCTTGTTTGTGACCTCTGGAGCTAGGCGGTTCTAGGCGGTTCCAGCGCAGTCCCTGCTCTGACCTGGCTGGCAGCTCATGATTTTGTCTGTTTTGTTTTTCTCATGAAG
Seq C2 exon
GTGACGGCCTCTCTCTTAGGTTCGCCTTCTAAGACCAGCTCACTGCTCATCCTGACGGAGAACGAGAATGAAAAGAGGAAGTGGGTAGGGATCCTTGAAGGGCTGCAGGCCATCTTGCATAAGAACCGGCTGAAGAGCCAGGTAGTGCACGTCGCACAGGAGGCCTACGACAGCTCGCTGCCGCTCATCAAGGCCGTCCTGGCTGCTGCTATCGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021279:ENSMUST00000041965:27
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:
NO
A:
NA
C2:
PF0078017=CNH=PU(1.9=6.8)
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:
TGAGGAGTTTGCTGTGAGTTCA
R:
ACGATAGCAGCAGCCAGGA
Band lengths:
294-1893
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types