MmuEX6028118 @ mm10
Exon Skipping
Gene
ENSMUSG00000066842 | Hmcn1
Description
hemicentin 1 [Source:MGI Symbol;Acc:MGI:2685047]
Coordinates
chr1:150627030-150630372:-
Coord C1 exon
chr1:150630216-150630372
Coord A exon
chr1:150627373-150627494
Coord C2 exon
chr1:150627030-150627194
Length
122 bp
Sequences
Splice sites
3' ss Seq
GTGTTTGGACTCTCCTCTAGGCT
3' ss Score
8.88
5' ss Seq
AAGGTAGAA
5' ss Score
6.33
Exon sequences
Seq C1 exon
TCCCTCCATCGATTGCTATGGGTCCTACCAACGTAACAGTAACAGTGAATGTCCAAACTACTTTGGCTTGTGAAGCTACTGGGATACCAAAACCATCAGTCACCTGGAGAAAAAATGGACATCTTCTTAATGTAGATCAAAATCAAAATTCATACAG
Seq A exon
GCTCCTTTCCTCTGGTTCACTTGTAATCATTTCCCCCTCTGTGGATGACACTGCCAGTTACGAGTGCACTGTGACAAGCGATGCTGGAGAGGACAAGAGAGCAGTGGACCTCACTGTCCAAG
Seq C2 exon
TTCCTCCCACCATAGCGGATGAACCTATGGATTTCCTGGTGACCAGACAGGCCCCAGCAGTCATGACCTGCTCAGCTTCTGGAGTTCCTGTTCCCTCAATTCACTGGACCAAAAATGGCCTAAGACTGCTTCCCAGAGGAGACGGCTATCGGATTCTGTCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066842-'81-83,'81-82,82-83=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=0.057 A=0.357 C2=0.036
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(55.6=94.3)
A:
PF0767911=I-set=PD(43.3=92.9)
C2:
PF0767911=I-set=PU(60.2=94.6)
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:
CCCTCCATCGATTGCTATGGG
R:
AGGAACTCCAGAAGCTGAGCA
Band lengths:
245-367
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