MmuEX6028105 @ mm9
Exon Skipping
Gene
ENSMUSG00000066842 | Hmcn1
Description
hemicentin 1 [Source:MGI Symbol;Acc:MGI:2685047]
Coordinates
chr1:152499642-152503715:-
Coord C1 exon
chr1:152503584-152503715
Coord A exon
chr1:152502923-152503072
Coord C2 exon
chr1:152499642-152499801
Length
150 bp
Sequences
Splice sites
3' ss Seq
CTCTTTATTTCTTCCTGTAGAAA
3' ss Score
10.26
5' ss Seq
AGGGTATGT
5' ss Score
8.34
Exon sequences
Seq C1 exon
TGCCTCCTACTATTGAAGGGCCGGAAACAGAAGTCATTGTGGAGACAATCAGCAATCCAGTGACATTGACTTGTGATGCCACTGGGATCCCGCCTCCCACCATAACATGGTTAAAGAACCACAAGCCTATAG
Seq A exon
AAAATTCTGACCCCCTTGAAGTTCACATTTTGTCTGGAGGAAGCAAACTGCAGATCGCCCGACCTCAGCGTTCAAACAGTGGAAACTACACGTGTGTTGCATCCAATATGGAGGGAAAGGCTCAGAAAAACTTTATCCTTTTCATTCAGG
Seq C2 exon
TCCCTCCAAGTGTTGCCGGTGCTGAAGTTCCAAGTGAAGTTAGTGTCCTTCTCGGGGAAAATGTTGAGCTGGTCTGCAATGCAGATGGCATTCCCACCCCTCATCTTCAGTGGCTTAGGGATGGAAAACCCATAGTGAATGGCGAAACAGAGCGAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066842-'64-63,'64-62,65-63=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.244 A=0.176 C2=0.130
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(46.2=93.3)
A:
PF0767911=I-set=PD(52.7=94.1)
C2:
PF0767911=I-set=PU(52.9=85.2)
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:
TCCTACTATTGAAGGGCCGGA
R:
AAGCCACTGAAGATGAGGGGT
Band lengths:
244-394
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: