MmuEX6096391 @ mm9
Exon Skipping
Gene
ENSMUSG00000040690 | Col16a1
Description
collagen, type XVI, alpha 1 [Source:MGI Symbol;Acc:MGI:1095396]
Coordinates
chr4:129742618-129743957:+
Coord C1 exon
chr4:129742618-129742749
Coord A exon
chr4:129743425-129743460
Coord C2 exon
chr4:129743850-129743957
Length
36 bp
Sequences
Splice sites
3' ss Seq
TGAGACCGTTTTCTCCTCAGGGT
3' ss Score
9.53
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
Exon sequences
Seq C1 exon
GGGGAGCCCTGTGAGCCCTGCACAGCCTTGTCTGAGCTACAAGATGGGGACATGCGTGTGGTTCATCTGCCCGGCCCAGCTGGAGAGAAGGGAGAGCCTGGGTCCCCGGGCTTCGGGCTGCCTGGGAAGCAG
Seq A exon
GGTAAAGCAGGAGAGCGTGGACTCAAGGGGCAGAAG
Seq C2 exon
GGGGATGCTGGGAATCCAGGAGACCCTGGAACACCAGGCATCACAGGGCAGCCTGGGATATCTGGAGAGCCTGGGATTCGAGGTCCTGCAGGACCAAAAGGAGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040690-'34-35,'34-34,35-35=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(12.7=18.2),PF0139113=Collagen=PU(48.9=50.0),PF0139113=Collagen=PU(9.7=13.6)
A:
PF0139113=Collagen=FE(24.4=100),PF0139113=Collagen=FE(17.7=100)
C2:
PF0139113=Collagen=PD(20.0=25.0),PF0139113=Collagen=FE(56.5=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGAGAGAAGGGAGAGCCTG
R:
TCTCCAGATATCCCAGGCTGC
Band lengths:
121-157
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: