MmuINT0036752 @ mm10
Intron Retention
Gene
ENSMUSG00000033392 | Clasp2
Description
CLIP associating protein 2 [Source:MGI Symbol;Acc:MGI:1923749]
Coordinates
chr9:113852623-113853404:+
Coord C1 exon
chr9:113852623-113852790
Coord A exon
chr9:113852791-113853348
Coord C2 exon
chr9:113853349-113853404
Length
558 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGG
5' ss Score
7.66
3' ss Seq
CATTTCTTCTTACCTTCCAGTCG
3' ss Score
9.2
Exon sequences
Seq C1 exon
GACATACATGGGCCTTAGGAACCACTTTCCTGGTGAAGCTGAAACATTGTACAACTCCCTTGAGCCATCATATCAGAAAAGTCTTCAAACTTACTTAAAGAGTTCTGGAAGTGTAGCTTCTCTTCCGCAGTCAGACAGGTCCTCATCCAGCTCACAAGAAAGTCTCAA
Seq A exon
GTAAGGTTATACACTTGGGAGCGCATGTCTTCCTCTTCCTAACTCCTTCACCTGGGTAGTTTGTGTCTACTAAGACCTTGATAAAATGGTGACCTGGTGTTTGCTCTGCGGTTAGGGTTAATGAGTCACATTTTGTTTCTGTATATAAGTGTGTGGAAACACTTGACTTCTGTGTGATTATTCATACCATAAAATAATTGATGCAGCAAGTAGTGCATTTCCACAACATGACATTGGAGGAATCACATGAGACGAGACCTGGTGTGCAGGGCTGCCTGCATGCTAGTGAGAACCATGCTGTCTCTTTCTTCTAAGTGAAGTACTTCAGGGTGCGAGTGATTGATAGTGCTGACATTGTCTATGTGCTGAAGAGCGGAGTCAGTAATGTAACCTGGTCTCCATTTGTTCATTGCCAATTACTTCTTTATTGCCAGTTCTTGAAAACAACTGTTTTTAAGAAAAAAAAAATGCCTCAATTTTCTTGACAGCTGCTATTTCATTCTTACCAGAGTGGTCAACCAAGTCTTGTTACTAAAAACATTTCTTCTTACCTTCCAG
Seq C2 exon
TCGTCCTTTTTCTTCTAAATGGTCAACAGCAAATCCTTCAACTGTAGCTGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033392:ENSMUST00000111838:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.447 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF123483=CLASP_N=PD(13.3=50.9),PF123333=Ipi1_N=PD(7.7=10.5)
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:
CATACATGGGCCTTAGGAACCAC
R:
CTCTTCCAGCTACAGTTGAAGGA
Band lengths:
222-780
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