MmuEX6028115 @ mm10
Exon Skipping
Gene
ENSMUSG00000066842 | Hmcn1
Description
hemicentin 1 [Source:MGI Symbol;Acc:MGI:2685047]
Coordinates
chr1:150630654-150632547:-
Coord C1 exon
chr1:150632406-150632547
Coord A exon
chr1:150631167-150631311
Coord C2 exon
chr1:150630654-150630781
Length
145 bp
Sequences
Splice sites
3' ss Seq
GTTGTGTTTGTTTTGTTCAGTTC
3' ss Score
7.3
5' ss Seq
AAGGTAACA
5' ss Score
8.92
Exon sequences
Seq C1 exon
GCAACACCTCGAGTAAGAATCCTGTCTGGGGGCAGATACTTACAAATCAATAATGCAGACCTGGGAGACACAGCCAATTACACCTGTGTTGCCAGCAACATCGCGGGAAAGACTACAAGAGAATTTAACCTCACTGTAAATG
Seq A exon
TTCCTCCAAGCATCGGTGGCGGTCCCCAGAGCCTTGTCACTCTCTTAAATAAGTCAATCGCCCTGGAATGCCGTGCTGAAGGCGTGCCAGCACCGAGGATAACGTGGAGAAAGGATGGCGTTGTGCTAGCTGAGAGCCATGCAAG
Seq C2 exon
ATATTCCATCTTGGAAAATGGATTCCTTCATATTGAATCAGCACATGTCACAGATACTGGACGGTATTTGTGTATGGCGACCAATGTGGCTGGAACAGACCGTAGGCGAATAGATTTACAAGTCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066842-'78-80,'78-79,79-80=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=0.062 A=0.020 C2=0.091
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(52.9=93.8)
A:
PF0767911=I-set=PU(52.3=93.9)
C2:
PF0767911=I-set=PD(46.6=93.2)
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:
TAAGAATCCTGTCTGGGGGCA
R:
CTATTCGCCTACGGTCTGTTCC
Band lengths:
242-387
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