MmuEX6028100 @ mm10
Exon Skipping
Gene
ENSMUSG00000066842 | Hmcn1
Description
hemicentin 1 [Source:MGI Symbol;Acc:MGI:2685047]
Coordinates
chr1:150658479-150664960:-
Coord C1 exon
chr1:150664773-150664960
Coord A exon
chr1:150663858-150663954
Coord C2 exon
chr1:150658479-150658640
Length
97 bp
Sequences
Splice sites
3' ss Seq
ATGTCTTCATTTTCCTTTAGATT
3' ss Score
10.11
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
Exon sequences
Seq C1 exon
TGCCACCAGTTATCAAGGGAGCAAACAGTGATCTGCCAGAAGAGGTCACCGTGCTAGTGAACAAGAGTACACAGATGGAATGTTCATCCAGTGGTAACCCAGCACCGAGAAATTACTGGCAAAAAGATGGACAGATCTTGTTAGAAGATGAACATCATAAGTTCCAGTCTGATGGCAGGAGTCTTCAG
Seq A exon
ATTCTAAATGCTCAAATAACAGATACTGGAAGGTATGTGTGTGTCGCAGAGAACACTGCTGGGAGTGCCAAGAAATACTTTAACCTCAACGTTCATG
Seq C2 exon
TTCCTCCAAGTGTCATTGGTCCTAACCATGAACATCTCTCTGTGGTTGTGAACCATTTCATCTCTTTGAACTGTGAAGTTTCTGGTTTTCCCCCTCCTGACCTCAGCTGGCTCAAGAATGAAGAGCCAATCAAGCCAAACACGAATGTTCTCACCGTGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066842-'62-63,'62-62,63-63=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=0.286 A=0.000 C2=0.218
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(62.8=85.7)
A:
PF0767911=I-set=PD(34.9=90.9)
C2:
PF0767911=I-set=PU(58.0=92.7)
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:
TTCCAGTCTGATGGCAGGAGT
R:
TCGTGTTTGGCTTGATTGGCT
Band lengths:
171-268
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