MmuEX6073546 @ mm10
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:114206525-114208360:+
Coord C1 exon
chr3:114206525-114206560
Coord A exon
chr3:114206654-114206707
Coord C2 exon
chr3:114208111-114208360
Length
54 bp
Sequences
Splice sites
3' ss Seq
TACTCTTTTCTTTCAAACAGGGA
3' ss Score
10.18
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
Exon sequences
Seq C1 exon
GGTCCCGCTGGCCCGAAGGGTAACAAAGGATCATCT
Seq A exon
GGACCTACTGGCCAGAAGGGTGACAGTGGTATGCCAGGGCCTCCCGGGCCTCCA
Seq C2 exon
GGTCCTCCTGGAGAAGTGATACAGCCTTTGCCTATTTTGTCACCAAAAAAGACCAGAAGACACACTGAAAGCATCCAGGGTGATGCAGGAGATAATATTCTTGACTACTCAGATGGCATGGAGGAGATATTTGGTTCCCTCAATTCTCTGAAACAAGACATTGAACACATGAAGTTTCCCATGGGCACACAGACCAACCCAGCACGAACATGCAAAGACCTGCAACTCAGCCATCCCGACTTCCCAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'72-72,'72-71,73-72
Average complexity
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=0.825
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(17.5=100)
A:
PF0139113=Collagen=FE(27.0=100)
C2:
PF0139113=Collagen=PD(12.7=9.5),PF0141013=COLFI=PU(12.7=32.1)
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:
CGAAGGGTAACAAAGGATCATCT
R:
TCCTCCATGCCATCTGAGTAGT
Band lengths:
148-202
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types