MmuEX6073569 @ mm9
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:113854293-113856106:+
Coord C1 exon
chr3:113854293-113854346
Coord A exon
chr3:113855527-113855634
Coord C2 exon
chr3:113856017-113856106
Length
108 bp
Sequences
Splice sites
3' ss Seq
GCTTTGCTTGTTTGATTTAGGGA
3' ss Score
8.62
5' ss Seq
AAGGTACCA
5' ss Score
7.87
Exon sequences
Seq C1 exon
GGATTTCAAGGCAAGACAGGTCCCCCTGGACCAGGAGGTGTGGTAGGACCACAG
Seq A exon
GGACCAACTGGTGAGACTGGTCCTATAGGTGAACGTGGCCATCCCGGCCCTCCTGGTCCTCCTGGCGAGCAAGGACTTCCCGGTGCTGCAGGGAAAGAAGGTGCAAAG
Seq C2 exon
GGTGATCCCGGGCCTCAAGGTATCTCAGGAAAAGATGGACCAGCAGGAATACGCGGTTTCCCAGGTGAAAGAGGCCTTCCTGGAGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'41-41,'41-40,42-41=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:
NO
A:
NO
C2:
PF0139113=Collagen=PU(41.4=96.7)
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:
ATTTCAAGGCAAGACAGGTCCC
R:
GCTCCAGGAAGGCCTCTTTCA
Band lengths:
138-246
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: