MmuEX6028048 @ mm10
Exon Skipping
Gene
ENSMUSG00000066842 | Hmcn1
Description
hemicentin 1 [Source:MGI Symbol;Acc:MGI:2685047]
Coordinates
chr1:150859139-150876495:-
Coord C1 exon
chr1:150876425-150876495
Coord A exon
chr1:150860219-150860377
Coord C2 exon
chr1:150859139-150859261
Length
159 bp
Sequences
Splice sites
3' ss Seq
TCTTGCTTTCTGTTCAACAGGGA
3' ss Score
10.06
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
Exon sequences
Seq C1 exon
AAATTGGTCCAGTGACAATTACCACAGATCCAAAAAAATTTCAGTATGAATTGAGAGAACTGTATGTTCAG
Seq A exon
GGAGGTGGTGACTGTCCAGAAATGAGCATCGGGGCTATAAAGATTGCCTTGGAAATCTCTCTTCCTGGGTCCTTCATCTATGTTTTCACTGATGCACGATCCAAGGATTATCGGCTCACCCATGAGGTGCTGCAGCTTATCCAACAGAAACAATCTCAG
Seq C2 exon
GTGGTATTTGTGCTCACTGGAGACTGTGATGACAGGAATCATATTGGATATAAAGTCTATGAAGAAATTGCCTCTACAAGTTCTGGTCAAGTGTTCCATCTGGACAAAAAGCAAGTGAATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066842-'1-4,'1-3,4-4=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=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF135191=VWA_2=FE(13.4=100)
A:
PF135191=VWA_2=FE(30.2=100)
C2:
PF135191=VWA_2=FE(23.3=100)
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:
AAATTGGTCCAGTGACAATTACCAC
R:
CTCATTCACTTGCTTTTTGTCCAGA
Band lengths:
194-353
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