MmuEX6076988 @ mm10
Exon Skipping
Gene
ENSMUSG00000024330 | Col11a2
Description
collagen, type XI, alpha 2 [Source:MGI Symbol;Acc:MGI:88447]
Coordinates
chr17:34062458-34062892:+
Coord C1 exon
chr17:34062458-34062565
Coord A exon
chr17:34062669-34062722
Coord C2 exon
chr17:34062839-34062892
Length
54 bp
Sequences
Splice sites
3' ss Seq
GTGTTCTTTCTAATCTATAGGGT
3' ss Score
9.48
5' ss Seq
GTGGTAAGC
5' ss Score
8.15
Exon sequences
Seq C1 exon
GGGGACCCTGGTGCTGTGGGGGCCCCGGGAAAGACAGGCCCTGTGGGTCCTGCAGGCCTAGCAGGAAAGCCCGGCCCCGATGGTCTTCGGGGGCTCCCGGGTTCAGTG
Seq A exon
GGTCAGCAAGGCCGCCCTGGAGCCACAGGCCAGGCTGGGCCCCCAGGTCCTGTG
Seq C2 exon
GGACCCCCAGGGCTTCCTGGCCTCCGGGGTGATGCTGGAGCCAAGGGGGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024330-'67-74,'67-68,74-74=AN
Average complexity
A_S
Mappability confidence:
NA
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:
PF0139113=Collagen=PU(10.8=44.4)
C2:
PF0139113=Collagen=FE(22.7=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:
GAAAGACAGGCCCTGTGGGT
R:
CTTTTCCCCCTTGGCTCCAG
Band lengths:
134-188
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