MmuEX6028133 @ mm10
Exon Skipping
Gene
ENSMUSG00000066842 | Hmcn1
Description
hemicentin 1 [Source:MGI Symbol;Acc:MGI:2685047]
Coordinates
chr1:150598256-150599651:-
Coord C1 exon
chr1:150599481-150599651
Coord A exon
chr1:150598872-150599042
Coord C2 exon
chr1:150598256-150598426
Length
171 bp
Sequences
Splice sites
3' ss Seq
CACATTTTCTGTTAATCCAGTGG
3' ss Score
3.49
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
Exon sequences
Seq C1 exon
TCCATGGTGTGTGGAATGCTTGGCAGCCTTGGAGTGCGTGCAGCAAAAGCTGTGGAAAAGGCAGTCAGACCAGAATGAGACTTTGCAACAACCCGCCACCGTCATTTGGTGGGGCCCACTGCAGTGGAGCAGAAACCCAGATGCAAGTCTGCAATGAGAGACACTGTCCAG
Seq A exon
TGGATGGCAGGTGGGCGACTTGGAGCAGTTGGAGTGCCTGCACCGTATCCTGCGGAGGAGGTGCCAGGAAGAGAACAAGGGACTGTTCTGACCCAGTGCCACAGTATGGAGGAAACAAATGTGAAGGGACTGGTGTCCAGAGTGACTTTTGCAATAGTGACCCTTGTCCAA
Seq C2 exon
CCCATGGTAACTGGAGCCCTTGGAGCGGCTGGGGGACGTGCAGTCGGACATGCAATGGAGGGCAGATGAGGCGGTACCGCACATGTGATAATCCACGTCCCTCCAATGGAGGAAGAGCCTGTGGGGGTCCAGATACCCAGATCCAGAGGTGCAACACTGACATGTGTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066842-'98-102,'98-100,99-102
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.052
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=WD(100=87.9)
A:
PF0009014=TSP_1=WD(100=87.9)
C2:
PF0009014=TSP_1=WD(100=87.9)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGTGGAAAAGGCAGTCAG
R:
ACAGGCTCTTCCTCCATTGGA
Band lengths:
246-417
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