MmuINT0036759 @ mm10
Intron Retention
Gene
ENSMUSG00000033392 | Clasp2
Description
CLIP associating protein 2 [Source:MGI Symbol;Acc:MGI:1923749]
Coordinates
chr9:113868548-113870730:+
Coord C1 exon
chr9:113868548-113868718
Coord A exon
chr9:113868719-113870622
Coord C2 exon
chr9:113870623-113870730
Length
1904 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
TGCTGCCACCGTCCTGCCAGCCC
3' ss Score
5.78
Exon sequences
Seq C1 exon
CTGGCAGCCGATCTGGGTCTCCAGGAAGAGTTCTAACCACAACAGCCCTCTCTACTGTGAGCTCTGGTGCTCAACGAGTCCTGGTCAATTCAGCTTCAGCACAGAAGAGAAGCAAGATCCCAAGGAGCCAGGGCTGCAGCAGAGAGGCCAGCCCATCTCGGCTCTCAGTGG
Seq A exon
GTAAGACTCTGCAGTGCCACCTTTGGCTTCCTTGAAAGTTCAAGGAGAATTAAAGTCTAGGTTGCTCAAGTATAGGGCATGAATTACATCTTGAAAGTGTAAGAACTTTGAAAGGGGGGCTAACATTGTAAAGCCCAAGATCAGTGTGTTTGTCTCATCAGCCTTAGTCCATATCTTAACTCTCATACCTTTCTATTGTCTTAGAGCTACCAGCTTAATTTTTATTTCAGAGTTGACACATGGCCCAGTGGGAAAGAGCGCTTGCTGCTTTTGCATAGGATCTGAGTTTGGTTCCCACCATCTGTATTGGATATTAGGCAGCTATCAGCCACCTGCAGCACCAGTCCCCAGGGTTTTGGCACCGTCATCTGTCCTCTGTAGGCACTCTCACATATGTGGCATAGTACACTTCCACAGACACACATGCACACATCAATAATCTTTTTTAAGTTGTAATGTTTGGCTAGGCCTGAGCATGCTATCTCATTAGAGCAAAGACAGGTGATGATGAATTTTAACTCAGCCTGGGCTACATAGCAAGACTGTTACATACATACTATTTTAAAGCCAAAAATGAAGAGTTATACAAAGTATTAAGAGTAAAGTTTGCTGCTAGGACACAACCTGCCATGACCCTGCCTCTTCTAACAGTACAGAGTCCTTCAGTGTGGAAGGGACTGCGCCTGCTGTACAGAAACCAGCTCTGCTCCAAGCCCTGCCAGTGGCTCGCGCCAGGCCCCATCAGCTGCTCTGCATCTGCAGTGAGGCATCCCTAGGTGTTCTCCCAGCAGTTTCTGACGGTTGTCTGTTTCGAAACTTTATAAAAGAGCCGTATTCCCTTCTCATATCTTTAGTGACATTGTCCTTTCAGGAAGACTCATGATCTGTGGAGCATCTTTTGTGGGCTCTGACCTGGTGTTCTAGCTCAGCCATCACTCAGAGACTCCTTTTCATTGCTTTCCTGGGTTGGATGGACTCAGCCTTGGAGATCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTCTCTCTCTCTCTCTCTCTCTCCTCATTTGCTTTGCTTCATACACATTCTCAAACTCCTCAGAAATGGTTTAGGAGTCCAGGTTTTTATAGCTTCATAAGAATGTCATCATTCAGTTAAACTTAATTTAGGCCTACAGACATGGGATTGAGGTCCTTAACAACAAACACCGAAGGTTTCTGGGACTTTGATCTTCACTACTTTGCTTCTTTTTGCTTTCCAGACATTATTAGATTCTTTATTATACCTTCATTTAGTACTCTCAGATTCTTTTGGCTTCTTAAAACTTGTATTTGTATTTGTGTTTTTATTTATAAGGAGTGAAAAAGACATATGAACCGAAAGCTTCCTAGTTTGAGACTAGCCTGGGCTCCATGGTTCTAGAGACTCAGTCTGAAAGGAGAAAATAATAAAAGAGTAATTCATTTTCAATCCCAAAACAAACAAACTTGTTATTAATCAGTTCTTTAAAACAAACAAACAAGGTGGAACAACATTATGAACTAACCAGTACCCCGGAGCTCTTGACTCTAGCTGCATATGTATCAAAAGATGGCCTAGTCGGCCATCACTGGAGAGGCCCATTGGACAAAATTTATATGCCCCAGTACAGGGGAACGCCAGGGCCAAAAAGGGGGAGTGGGTGGGTAGGGGAGTGGGGGTGGGTGGGTATGGGGGACTTTTGGTATAGCATTGGAAATGTAAATGAGCTAAATACCTAATAAAAAATGGGGAAAAAAAAAACAAACAAACAAAACCAAACCAAAACAAAACAAAAAAACCCCAAAAAACAAAAAACTAAATGTTTGGAAGCTTAAATTCTGCCTTCTGTTTTCTCTTGCTATGCTGCCACCGTCCTGCCAG
Seq C2 exon
CCCGGAGCAGCCGTATTCCTCGGCCGAGTGTGAGTCAAGGCTGTAGCCGGGAAGCCAGCAGAGAGAGCAGCAGGGACACGAGTCCGGTGCGCTCCTTCCAGCCGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033392:ENSMUST00000111838:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGTCTCCAGGAAGAGTTCT
R:
GAAGGAGCGCACCGGACTC
Band lengths:
256-2160
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