MmuEX6028146 @ mm9
Exon Skipping
Gene
ENSMUSG00000066842 | Hmcn1
Description
hemicentin 1 [Source:MGI Symbol;Acc:MGI:2685047]
Coordinates
chr1:152412447-152424752:-
Coord C1 exon
chr1:152424402-152424752
Coord A exon
chr1:152420606-152420725
Coord C2 exon
chr1:152412447-152412573
Length
120 bp
Sequences
Splice sites
3' ss Seq
TCTGTTCTCTTTCTAAACAGATA
3' ss Score
11.8
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
Exon sequences
Seq C1 exon
ACATTAATGAATGTGAGCAAGTACCTAAGCCTTGTGCACATCAGTGCTCCAACAGCCCCGGCAGCTTCAAGTGTATCTGTCTGCCAGGACAGCAGTTGTTAGGGGATGGGAAATCTTGCGCTGGATTGGAGAGGCTGTCGAATTATGGCACTCAGTACAGTAGCTATACCCTTGAGCGGTTCTCCCCTGTGAGAAGCGACTATCAACCTTCGCAGCATTACAGACAGTACTCACAACTCTACAGCTCCTACTCAGAGTATAGGAACAGCAGAGCATCTTTCTCCAGGAATAGAAGGACTATTAGGAAAACTTGCCCTGAAGGCTCTGAGGCAAACCATGAGACATGTGTAG
Seq A exon
ATATTGATGAATGTCAAAACAGAGACACTTGCCAACACGAGTGTAAAAACACGATCGGGAGCTACCAGTGCGTCTGCCCACCAGGTTATCGACTCATGCTCAATGGGAAAACGTGCCAAG
Seq C2 exon
ATGTAGATGAGTGCCTGGAGCAGAATGTCCGCTGTGGACCAAATCGAATGTGTTTCAACATGAGAGGAAGCTACCAGTGCATCGACACACCCTGCCCACCCAACTACCAACGGGATCCTGTTTTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066842-'108-107,'108-105,109-107=AN
Average complexity
A_C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.008 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=33.9)
A:
PF0764510=EGF_CA=WD(100=95.1)
C2:
PF126622=cEGF=PD(12.5=7.0)
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:
CTCCCCTGTGAGAAGCGACTA
R:
GTCGATGCACTGGTAGCTTCC
Band lengths:
256-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: