MmuEX6028134 @ mm10
Exon Skipping
Gene
ENSMUSG00000066842 | Hmcn1
Description
hemicentin 1 [Source:MGI Symbol;Acc:MGI:2685047]
Coordinates
chr1:150597936-150599042:-
Coord C1 exon
chr1:150598872-150599042
Coord A exon
chr1:150598256-150598426
Coord C2 exon
chr1:150597936-150598106
Length
171 bp
Sequences
Splice sites
3' ss Seq
CAAATTATTTCACACTGTAGCCC
3' ss Score
3.77
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
Exon sequences
Seq C1 exon
TGGATGGCAGGTGGGCGACTTGGAGCAGTTGGAGTGCCTGCACCGTATCCTGCGGAGGAGGTGCCAGGAAGAGAACAAGGGACTGTTCTGACCCAGTGCCACAGTATGGAGGAAACAAATGTGAAGGGACTGGTGTCCAGAGTGACTTTTGCAATAGTGACCCTTGTCCAA
Seq A exon
CCCATGGTAACTGGAGCCCTTGGAGCGGCTGGGGGACGTGCAGTCGGACATGCAATGGAGGGCAGATGAGGCGGTACCGCACATGTGATAATCCACGTCCCTCCAATGGAGGAAGAGCCTGTGGGGGTCCAGATACCCAGATCCAGAGGTGCAACACTGACATGTGTCCTG
Seq C2 exon
TGGACGGAAGTTGGGGAACATGGCACAGCTGGAGCCACTGTTCTGTCTCTTGTGGAGGAGGTGAAAGGACTCGAAAGCGACTATGTGACAATCCAGTGCCAACTAAAGGTGGCCGTTCCTGTCCGGGAGATGCCACCCAGGTCTCCAGATGTAACATGCAAGCATGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066842-'99-103,'99-102,101-103=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=0.052 C2=0.069
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=WD(100=87.9)
A:
PF0009014=TSP_1=WD(100=87.9)
C2:
PF0009014=TSP_1=WD(100=87.9),PF074747=G2F=PU(0.5=1.7)
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:
ACAAGGGACTGTTCTGACCCA
R:
TACATCTGGAGACCTGGGTGG
Band lengths:
250-421
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