MmuEX6028056 @ mm10
Exon Skipping
Gene
ENSMUSG00000066842 | Hmcn1
Description
hemicentin 1 [Source:MGI Symbol;Acc:MGI:2685047]
Coordinates
chr1:150773764-150802938:-
Coord C1 exon
chr1:150802817-150802938
Coord A exon
chr1:150798722-150798997
Coord C2 exon
chr1:150773764-150773905
Length
276 bp
Sequences
Splice sites
3' ss Seq
TGAGTCTTCTGATTTTGCAGAGC
3' ss Score
8.32
5' ss Seq
AAGGTACAT
5' ss Score
7.87
Exon sequences
Seq C1 exon
AGAATCTGCCAGCGTGAACTGGGACTTCACAAAGGTGACGTTGTCTGACGAGGGCTTCTATGACTGTATCGCTGTGAGCAGCGCAGGGACGGGACGGGCACAGACGTTCTTTGATGTATCAG
Seq A exon
AGCCTCCTCCGATCATCCAACTGCCTAATAATGTAACAGTCACTCCTGGAGAAAGAGCAGTTTTGGCATGTCTTGTCATCAGTGCCGTGGATTATAACCTAACCTGGCAGAGGAGTGGCAGAGATATCCGACTAGCAGACTCAGCAAGAATTAGGACCTTGGCCAACCTCTCACTGGAGCTGAGGAGTGTGAAAATTGGTGATGCTGGGGAGTACCGTTGTGTGGTTTCCAGTGAAGGGGGATCAGCAGCAGCTTCAGTTTTCCTCACAGTCCAAG
Seq C2 exon
AAAAACCCAAAGTCACTGTGATGCCCAAGAATCAGTCTTTCACAGGAGGGTCTGAGATCTCCATCATGTGTTCTGCAACAGGATATCCCAAACCGAAGATTGTCTGGACCATGAATGAGATGTTTATCATGGGTTCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066842-'11-14,'11-13,12-14=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.032 C2=0.062
Domain overlap (PFAM):
C1:
NO
A:
PF0767911=I-set=WD(100=95.7)
C2:
PF0767911=I-set=PU(52.3=93.8)
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:
AGAATCTGCCAGCGTGAACTG
R:
TGTGTGAACCCATGATAAACATCTCA
Band lengths:
263-539
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