MmuEX6028139 @ mm10
Exon Skipping
Gene
ENSMUSG00000066842 | Hmcn1
Description
hemicentin 1 [Source:MGI Symbol;Acc:MGI:2685047]
Coordinates
chr1:150588212-150594033:-
Coord C1 exon
chr1:150593912-150594033
Coord A exon
chr1:150592956-150593193
Coord C2 exon
chr1:150588212-150588274
Length
238 bp
Sequences
Splice sites
3' ss Seq
CCTCAAATCCTTTCCCTTAGGAT
3' ss Score
8.91
5' ss Seq
AAGGTAACA
5' ss Score
8.92
Exon sequences
Seq C1 exon
GAGAGGTCTTGCGGATGACACACGTGGCTCGGGGCTTAGACTCCGACGGCGCCTTGCTGCTTGATGTCATTGTGAGTGGCCAGGTCCTACAGCTCCACTCACCTGCTGAAGTCGGTGTGAAG
Seq A exon
GATTACACAGAGGACTACATTCAAACAGGACCCGGTCAGCTCTATGCCTACTCAACTCGTCTGTTCACCATCGATGGCATCAGTATCCCCTATACGTGGAACCACACCATTTTCTATGATCAGGCCTGGGGGAAAATGCCTTTCTTAGTAGAGACACTTCATGCATCTTCCATAGAGTCTGACTACAACCAACTAGAAGAGACACTGGGTTTTAAAATCCATGCTTCAATTTCCAAAG
Seq C2 exon
GAGATCGCAGTAACCAGTGCCCCTCTGGGTTCATTTTAGACTCGGTTGGACCCTTTTGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066842-'106-109,'106-108,108-109=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF074747=G2F=FE(21.3=100)
A:
PF074747=G2F=PD(26.1=61.2)
C2:
NO
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:
GAGAGGTCTTGCGGATGACAC
R:
CACAAAAGGGTCCAACCGAGT
Band lengths:
182-420
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