MmuEX0012117 @ mm9
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:113798119-113800807:+
Coord C1 exon
chr3:113798119-113798211
Coord A exon
chr3:113799918-113800172
Coord C2 exon
chr3:113800745-113800807
Length
255 bp
Sequences
Splice sites
3' ss Seq
CCTGAAATTTAAATGAATAGCCA
3' ss Score
0.59
5' ss Seq
AGCGTAAGT
5' ss Score
10.07
Exon sequences
Seq C1 exon
GCAAATATTGTGGATGATTTTCAAGACTACAACTATGGAACAATGGAACCTTACCAGACTGAGACTCCTAGGCGGGTATCAGGATCGAATGAG
Seq A exon
CCAAATCCAGTTGAAGAAGGTTTTACTGAAGAATATCTAACCGGAGAGGATTATGATGTCCAGAGAAACACTTCCGAGGATATTCTGTACGGGAACAAAGGAGTAGACGGCAGGGATTCTGATCTCCTGGTAGATGGAGATTTAGGTGAATATGATTTTTATGAATACAAAGAATATGAAGAAAGGACTACGACCTCCCCTAATGAAGAATTTGGCCCAGGTGTCCCAGCAGAAACTGATTTCACAGAAACAAGC
Seq C2 exon
ATAAATGGACATGGTGCATATGGAGAGAAAGGGCAGAAGGGGGAACCGGCTGTGGTTGAACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.895 A=0.946 C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0139113=Collagen=PU(1.7=4.8)
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAATATTGTGGATGATTTTCAAGA
R:
GGGTTCAACCACAGCCGG
Band lengths:
156-411
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: