MmuINT0036762 @ mm9
Intron Retention
Gene
ENSMUSG00000033392 | Clasp2
Description
CLIP associating protein 2 [Source:MGI Symbol;Acc:MGI:1923749]
Coordinates
chr9:113787868-113789304:+
Coord C1 exon
chr9:113787868-113787891
Coord A exon
chr9:113787892-113789059
Coord C2 exon
chr9:113789060-113789304
Length
1168 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAG
5' ss Score
7.98
3' ss Seq
TAGTTCTTGATATGTGACAGAAA
3' ss Score
1.74
Exon sequences
Seq C1 exon
CTCTTAGGAGACATACGGACTAAG
Seq A exon
GTATAGACACTGCTATTTTCTGACATCTTATGATATCATAGCTTGTTTTCTTTGCTTCATCAACTTAACAGTTAATAGTCGTCTACAAAAAATAAGATCTTTAGCTGTCTATCTATTACTCTGTCATTGTCATTGTCATTGTCTGTGGGGGATACTGACTGAACATAGTGTCTTAGGGAGGTGCCACTTTTTCACACCTGAGATGAGTCATTTACACTGGAGTCTTTAATTGACCTGGTCCAGGAGCCCATCTAAGTAAACATTGTTATTCTAAATTGAGTTAGTGTCTGTAGGTCAGTAAAGAGTTACTGGTGGCAGCAGCTTTGTAAAAGCATTTGGTTATTTGTGTTCAGATAGTACGTCTTTAAAACTTTTGGACTGGAGAGCTACTATCTGTAGATGCTTGGAATTGCTGTACTTGGTGTGTTTCCTGGTAGTAGCCCCACCACTCCCTAGCCAAATCTAGGTATCAGAGTATGTACATTTGTTTCCAGTTTCTGCATGGGATTCTCAAAGCAGCTGTTTACCTCATGACACTTTTAATATCAAGGCATAATCGGCAGTTAAATAAAATACAAACTTTTTGGTTAAGAAATCAAAGGAACCTCAACTGCTTTCTCATTCAGAGTAAGCTTCAGAATAGAGATGACATTGGGAAACGTCTGAGGACATATAACCATCTTGCTTTCTAAAAATCCGGACTTATCTTGGAGACGTAAAGCTTCAAACAGAGGGGGGAAAATGGCAAGAGAAATAGAAAGGAAGAGGTATATATAGACAGGAAAGAACATAGTATTTTATGTAAGAGAATCGTGGTAAATCCCCTTAAAAGGTGGTATTTTCTTACTACCAATTCATATTTCTAGTTCAATTTCTATTAATTTACATTGTATTTGTTCTCGCTTTTCCATGTGAAGGAGAAGCATAAGCTTTAGAGCACCTCCCACTTCACATGTCCTCTATGTCACCATAGTTAAACAGTTCGTGTTCCACTAACTTCTAAAGCACTTCTTGAAGAGAAGCTAAATATTGACATTTTATCTTTACAATGGTTAGCAGCATGTCCTCAACTGATCTATGACAGAAACAGTCCTTTTGTGTTAAGTAAACATTATGAAATATCCATATGTTTGTAACTACTGCTAATGTAGTTCTTGATATGTGACAG
Seq C2 exon
AAAAAACCTGCTCGAAGAAGGTATGAATCATATGGAATGCACTCAGATGATGATGCCAACAGCGATGCCTCTAGTGCGTGTTCAGAACGCTCCTATAGCTCTCGAAATGGTAGTATTCCTACCTACATGAGACAGACAGAAGACGTGGCAGAAGTCCTCAACAGATGTGCTAGCTCCAATTGGTCAGAGAGGAAAGAAGGCCTCTTGGGTCTGCAGAACTTGTTAAAAAACCAGAGAACGCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033392-Clasp2:NM_001114347:25
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=1.000 A=NA C2=0.846
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF123483=CLASP_N=PU(17.2=47.6),PF116403=TAN=PU(50.7=46.3)
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:
CTCTTAGGAGACATACGGACTAAG
R:
CAAGTTCTGCAGACCCAAGAGG
Band lengths:
246-1414
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: