MmuINT0032858 @ mm10
Intron Retention
Gene
ENSMUSG00000026490 | Cdc42bpa
Description
CDC42 binding protein kinase alpha [Source:MGI Symbol;Acc:MGI:2441841]
Coordinates
chr1:180064966-180067399:+
Coord C1 exon
chr1:180064966-180065166
Coord A exon
chr1:180065167-180067150
Coord C2 exon
chr1:180067151-180067399
Length
1984 bp
Sequences
Splice sites
5' ss Seq
AAAGTTAGT
5' ss Score
4.24
3' ss Seq
GTATATCTTTGTCTGTGTAGGAG
3' ss Score
7.51
Exon sequences
Seq C1 exon
GTCCAGTCCTCGGTGGCAGTTGGAACTCCAGATTATATTTCTCCGGAAATCCTTCAGGCTATGGAAGACGGAAAAGGCAGATATGGACCAGAGTGTGACTGGTGGTCCTTGGGGGTCTGTATGTATGAGATGCTTTACGGAGAAACACCATTCTATGCAGAGTCTCTGGTGGAGACATATGGAAAAATTATGAATCACAAA
Seq A exon
GTTAGTATATTTATTTTTTTATAATTTTAATAGTAAATACATATAGTAAATTAAAGGAATATGATAGTAAAGACACAATACTTCTTTCAAAACAATGAATACTCATATTTTTTGATTAGTAGGGGATAATCATTCTTAATCATAATCTATGAAATAATTAGTTTTAACTTTTTACTATATTTTGTTGAGAAGTGCTCCTGAATAGAAACTTGGTCTATGTCTATATAGTTGAGTAATAGAGTTCAAAAGTGGTTAGTTTTTTAGTCAGTTTTAACTATATAGTATGTACAGTCATGACAAGCATGCATACACAGATTCTCAGTATCACTAATAATGAGTGGAGTGTGTGAAGAGAGATAAAAGTGAGATTTGTTGGCATCAGAAGACGACTTTGTAGCTACAGTCCTTTGCTGTACACCACTTCTGACCTCAGCTCAATCCCTGAACGGCACAGAAAGATGGAAGGAGGGAACTGACTCCACAGAGTTGTCCTCTGACCTTCACATGGGCAGTATGGCACTTGTGTGCATGCACACACCTCCACACAGCTGTAGTCATACACCACAATCATTGTTTTGTTTTGTTTTGTTGTGATTCTTCTGTCAATCTAGCAAGTACAAAATGAACCATCAGTACTCTAATAAATGCAGCTTCATGGGCCCTCCTCAGATTGTATTGACAGAACTACAAGTTGTAACTTCCTGTTTTAACAGCTGTACATCTTGAGTGTTAAAATTATGGTTAGAACTTTTAATGGAGCAAGGTCAGGCTTAGAAGTCAGCCTGGTTGGGATATCTAGAACAACTGTATATATAGGATATCTGTTCCAGTGTTAATGATCACAAAACACTGGCTGCAATCCATATACACAGCTGGAACAAGATCATAAAACTCAAGTAATGTGGAACTAGGTGAAACAAAATAAACAGTACAAAAGAAGAATAACTGTCCAGTTTCAGAAATTGTGAACAGTTACAAAAGTTCTCATTAGGAATCTGAATGCCACCAGAAGAATAGGATAACCTGTAATTTTTAATTTGGTCTGGTGATGCAAACATGATTAGTTTTTTTCTACATATTAATCAATTTTAGAGACTTTGTGTCTTCTTCTGAGCTGTAACTGTAGTGCAGTAAGTAGTTATGAAGAACTGGAAGCTAGGGAGAAGTTTGCAGTGTGTAAATGGCATGTGTATCATTCAGAAGGAAGTTACTTGAGTGTACACTGCTGAACAGCACAGGTCTGAAGAAAGAGTTCAAGTTCCTTTCCTGTCATTAGTTGTATGGCAGTTTCCTCTTCTACAAGACTGTCATACTAGCAGTTCCCACCCAGTGTGATTATTAAGAGAATCAAATGGGTCAGATAAGTAAATCACTTTGAATAGTGCCAGGTACATGTTAATTTTTCAATTGTTTAATGATTATTTGTTATTTTATATTGTATCTGAACATTATCAGTAATCTACTTCTTAGGAAATACTGAGTTAAATTCTGCTATTTGTAATCAGATCCACCTGATTTAACAGCAGCTTAACGCCTAGAGCAGTGGTTCTCAACCTTTCTAACGCTGCAACCCTTTAATTCAGTTCCTCATGTTGTGGTGACTCTCAGCCATAAAGTTATTTTGTTGGTACTTCATAACTAATTTTGCTACTGTTATGAATTGTAATGTAAATATCTGATATGCAGGGTATCTGATATGTGACCCCTCAAGGGGTTGCAACTCACAGATTGTGAACCGCTGCTATATAGCATCTGACCTTCTCTCTTTGTAGTTCCTCTGTCATGAAGTAACTTAGAGAATTAAAAGTTCCCTTAGGAAAAGGATTTACGTCCATCATCCCTGTGTCTCCCTACAGTGTCACTGCTAAGTCATCAAACACTTAGTAGACACTTTTCTAAGGGAAATGCATTTAAGTAAATCTACCGCATTCTGTAAGATAACTGCTAATTTGTATTTGCACACTGTATATCTTTGTCTGTGTAG
Seq C2 exon
GAGCGGTTTCAGTTTCCAGCCCAAGTGACAGACGTGTCCGAAAATGCTAAAGATCTTATTCGAAGACTCATTTGTAGTAGAGAACATCGACTTGGCCAAAATGGAATAGAAGACTTTAAGAAGCATCCATTCTTCAGTGGAATTGATTGGGATAACATTCGGAATTGTGAAGCACCTTACATCCCAGAAGTTAGTAGCCCGACAGATACGTCAAATTTTGATGTGGATGACGACTGTTTAAAAAATTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026490:ENSMUST00000111117:7
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=0.145
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(24.7=100)
A:
NA
C2:
PF0006920=Pkinase=PD(16.5=53.0),PF0043319=Pkinase_C=PU(42.6=24.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTATGGAAGACGGAAAAGGCA
R:
TGACGTATCTGTCGGGCTACT
Band lengths:
357-2341
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