MmuEX6028069 @ mm10
Exon Skipping
Gene
ENSMUSG00000066842 | Hmcn1
Description
hemicentin 1 [Source:MGI Symbol;Acc:MGI:2685047]
Coordinates
chr1:150742264-150745080:-
Coord C1 exon
chr1:150744953-150745080
Coord A exon
chr1:150743587-150743856
Coord C2 exon
chr1:150742264-150742359
Length
270 bp
Sequences
Splice sites
3' ss Seq
TGCTCAGTTGTGCTTTCCAGTTC
3' ss Score
6.03
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
Exon sequences
Seq C1 exon
ACACACGTTCCTCCCTTCTGGCTCAATGAAGATCACAGAGACCCGCGTTTCAGACAGTGGGATGTATCTGTGTGTTGCCACAAATATTGCTGGGAATGTGACTCAGTCCGTTAAATTAAGTGTCCACG
Seq A exon
TTCCTCCAAAAATACAGCATGGAAATCGACACATAAAAGTCCAAGTCGGCCAGAGAGTGGACATCCTATGCAATGCCCACGGGTCTCCGCCTCCCGTGATCACCTGGTTTAAAAGCGGAAGGCCGTTCCTTGATGGAGCGCAGCATCCTGGTAGCCCAGACGGAACGCTGAGCATTGAGCAGGCTGTGATCTCAGATGCTGGCGTATATACATGTGCTGCCACGAACATAGCCGGAAGTGATGAAGCAGAGGTCACATTGCATGTCCAAG
Seq C2 exon
AACCACCTTCAGTGGAAGACCTGCAACCTCCTTTTAACACTCCGTTCCAAGAAAGGTTGGCCAATCAGCGCATCGAATTTCCATGCCCTGCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066842-'26-28,'26-27,27-28=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=0.319 C2=0.515
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(47.7=93.2)
A:
PF0767911=I-set=WD(100=95.6)
C2:
PF0767911=I-set=PU(22.9=57.6)
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:
ACACACGTTCCTCCCTTCTGG
R:
TTGCAGGGCATGGAAATTCGA
Band lengths:
221-491
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