MmuINT1007230 @ mm10
Intron Retention
Gene
ENSMUSG00000064302 | Clasp1
Description
CLIP associating protein 1 [Source:MGI Symbol;Acc:MGI:1923957]
Coordinates
chr1:118541675-118543346:+
Coord C1 exon
chr1:118541675-118541698
Coord A exon
chr1:118541699-118543101
Coord C2 exon
chr1:118543102-118543346
Length
1403 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCC
5' ss Score
9.16
3' ss Seq
CTCCTCGTGGGACATTTTAGAAG
3' ss Score
1.78
Exon sequences
Seq C1 exon
CTGTTAGGAGACGCCAGGAGCAAG
Seq A exon
GTACCCGTGCTTTAACTTTTGTTTACAACTTTTTTTTTTCTGTTGCAAGTCTATTTCTTTTAGAATTTAGTTGAACGCAGCACAAAATGTAGTTGTAGTTAGAGACTCTGGTCTCAGTGTTTCTGGTAAGCATTCTGATTTGCTGCCGTGTGATGGAGTCCCGGCCCCTCTCATCCTTCTGGGAAGGTGCTCTGTTTTTATGTCACTCTGCTCCCTGTCCTTCCTGTGTTTTATTAACTCAATTTGTGTCTATTTTGTAATCATAACTTAATGAACAGATCTGTCGACCAACCTTTTCTTATTTTAGGAAATCTGGCTCATATGTGAGTGTAAATCATATATAGGTTATCATCTAAATCAAAACTATTTTTAAAGGTGCAAGGGGATGCTGGGAAGAACTTTTGCTGGGACAGAAGGCAGTACTTTCCTGAGCAAGCTGGGATTCAAAATAATTTGAATAGTTTGAAAATTAAAACTATTTGTGTGGCTTGAGCCAGTAACTGCATTTAGGAAACATATGTGCCAACCTTACCATACTAGGTATGGGTTTAACACACTGTCTTGTATTCAGAGTGTGAGAGGAGAATGAAGGGGGCTATTGTAGTCTACTTTAAAAGAAACCTATTGCCAGGCGTGGTGGCACACGCCTTTAATCCCAGCACTCGGGAGGCAGAGGCAGTTGGATTTCTGAGTTTGAGGCCAGCCTGGTCTACAAAGTGAGTTCCAGGACAGCCAGGGCTATAAAGAGAAACCCTGTCCAAAAAAAAAAAAAAAAAAAAAAAAGAAACCTATTGATGTTAAAAACCAAATGATGCTGTTAACTAAAATGGCTCATACAGTCTGCGGCCCTTTTGCATAGAATATCTCCACTACTAACAAACATTTCAACTGCAGACTTCTTAAGCAAGCATGATTGTTCAAGCAAGCACACCCACAGACCATGCTTAAGGGCTGCACATGTGAGCACAGCTGCAGTGAATTGTTGCTTTGTCCTTCAGAGTTTCATTAAACCCTTACACTAGTCTGCTGAGGCAGGTGTACTGGTTACCTTCCTTGAGAGGAGTCACCAAGGCAGAAACTGACACAGTTGTTCAGCAGTAATACTAGGATTGGCACCAAAATCCATTGGGCTGAAAAATCCCCTTTCCACCACCCCCATACATACACACTTTCTACAAGACAACAAATCCTTCTTCACAAAAATGTGCAGCATGTCACTTATGTCACCTACCTTGACACTTCTGTTTTTAATTCCCTAATTTGTAAGCACAGAAAATGTGTGTGTGTGTGTGTGTGTATGTTTCTTTTTATATTTAACTCTGCACTGTAGTTTTTAACGGATGAGTCATGACCGGTTCACCTTCCCACTTCTTCCTTCCCCTGCTCCTCGTGGGACATTTTAG
Seq C2 exon
AAGAAGCCTGTGAGAAGGAGATACGAGCCCTATGGAATGTACTCTGATGATGATGCCAACAGTGATGCCTCCAGCGTGTGCTCTGAGCGCTCATATGGCTCCAGGAATGGTGGCATTCCCCATTATCTGCGGCAGACTGAAGATGTAGCAGAGGTTCTCAACCATTGTGCCAGTTCCAACTGGTCAGAACGGAAAGAGGGGCTCCTGGGCCTGCAGAACTTACTGAAGAGCCAAAGAACACTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064302:ENSMUST00000190571:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.967 A=NA C2=0.683
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF123483=CLASP_N=PU(16.5=46.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTAGGAGACGCCAGGAGCAAG
R:
TCAGTGTTCTTTGGCTCTTCAGT
Band lengths:
265-1668
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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