MmuINT0036702 @ mm9
Intron Retention
Gene
ENSMUSG00000064302 | Clasp1
Description
CLIP associating protein 1 [Source:MGI Symbol;Acc:MGI:1923957]
Coordinates
chr1:120399430-120400532:+
Coord C1 exon
chr1:120399430-120399575
Coord A exon
chr1:120399576-120400396
Coord C2 exon
chr1:120400397-120400532
Length
821 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
CCAGTCCTTTCTTGTTGCAGGCA
3' ss Score
9.37
Exon sequences
Seq C1 exon
CTAAAAAAGATTAGATCGTTACTCTTGGCTGGGGCTGCTGAGTACGATAACTTCTTTCAACACTTGCGTCTTCTGGACGGGGCCTTTAAACTCTCTGCTAAGGACCTGCGGTCTCAGGTAGTGCGGGAAGCTTGTATCACATTGGG
Seq A exon
GTAAGGACTGCGAGCACTACATTCACCCACACTGTGATACAGTCTCTCAGGGCACATGTCTGTGGGGTCACCTCTAGCTGGTTTCCAAGACCCTAGTCTGTTAACACTTGTGTCCGTACTCTCAGAGTAGCTGCTACCCAGTTATTTAGTGTGTGTTGGATTTTAAATTTTACTCACGGACATAATCTCTGAAGCCTCTCGTGTACTATTAATTTAAAAAAAAAAAAGAAATCTTACAGCATTCATGAGATTTTTTTCATGATTTTTGCTTACAGGATAGAGTGCTTATTAGCACACTTAATGTTCTGGTGGAGCTCGAGCAGTGGTGGGCATGCAGGGCTGTGGGTGGTTAGTGGTTAGTGGTAGAGCCCTCAGTCAGTACTCAGCTCAAAGGGAAAAGGAGATGTAGCCCAGGATGTTAGCTCAGGAGCCACAACACCTGGCCAGCATTGTGACTGTATGGAGTTTTAGGGCAGGCAGATACTAAAGCATCATGTTTTATATGTAAAACAAAAATAAAATAAGTGGGAGGTCGGGGGGGGGCAAGTGTTGGGTTCATGCTTAATGTTTTTAGTTCATCTTTGGTCTTACTGGTTTTGTTTTTGTTATTTTAATACTTCTGTGGGAATTATTAAAAGAAATTTGTTGGCTGATGGCTTTGCCAAGTTTTCTACTTGTACATTTTAAGTCTATTTCCGAAGTGTCTTCGACCCTTGTCTTTTATCCCTAGAGAATTGTGAAGGAAAGCTGTCCCATGCTGAGGGGCTCTGTGCTTCCCTGTGTGTGAGGATGTGACTATAGCCAGTCCTTTCTTGTTGCAG
Seq C2 exon
GCATCTGTCATCAGTTCTGGGAAATAAGTTTGATCATGGAGCTGAAGCCATTATGCCAACTATCTTTAATTTAATCCCGAACAGTGCCAAAATTATGGCTACTTCTGGTGTTGTAGCTGTTAGGCTAATCATTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064302-Clasp1:NM_001081276:12
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF123483=CLASP_N=FE(22.0=100)
A:
NA
C2:
PF123483=CLASP_N=FE(20.6=100)
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:
AAAAGATTAGATCGTTACTCTTGGCT
R:
CCGAATGATTAGCCTAACAGCTACA
Band lengths:
278-1099
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: