MmuEX6073544 @ mm9
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:113911029-113916204:+
Coord C1 exon
chr3:113911029-113911278
Coord A exon
chr3:113914991-113915103
Coord C2 exon
chr3:113916136-113916204
Length
113 bp
Sequences
Splice sites
3' ss Seq
GTTTTTTTCTTAACGTCTAGGTG
3' ss Score
9.11
5' ss Seq
GGAGTAAGT
5' ss Score
8.57
Exon sequences
Seq C1 exon
GGTCCTCCTGGAGAAGTGATACAGCCTTTGCCTATTTTGTCACCAAAAAAGACCAGAAGACACACTGAAAGCATCCAGGGTGATGCAGGAGATAATATTCTTGACTACTCAGATGGCATGGAGGAGATATTTGGTTCCCTCAATTCTCTGAAACAAGACATTGAACACATGAAGTTTCCCATGGGCACACAGACCAACCCAGCACGAACATGCAAAGACCTGCAACTCAGCCATCCCGACTTCCCAGATG
Seq A exon
GTGAATATTGGATTGATCCTAACCAAGGTTGTTCAGGTGATTCCTTCAAAGTTTACTGTAATTTCACAGCTGGTGGTGAGACATGCATCTATCCGGATAAAAAATCTGAGGGA
Seq C2 exon
GTAAGAATTTCATCGTGGCCAAAGGAGAAACCAGGAAGTTGGTACAGTGAATTTAAGAGAGGAAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'67-68,'67-66,68-68=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=0.845 A=0.053 C2=0.087
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(12.7=9.5),PF0141013=COLFI=PU(12.7=32.1)
A:
PF0141013=COLFI=FE(17.5=100)
C2:
PF0141013=COLFI=FE(10.4=100)
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:
AGCCTTTGCCTATTTTGTCACCA
R:
TCTCCTTTGGCCACGATGAAA
Band lengths:
256-369
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: