MmuEX6076998 @ mm10
Exon Skipping
Gene
ENSMUSG00000024330 | Col11a2
Description
collagen, type XI, alpha 2 [Source:MGI Symbol;Acc:MGI:88447]
Coordinates
chr17:34059293-34059786:+
Coord C1 exon
chr17:34059293-34059346
Coord A exon
chr17:34059470-34059523
Coord C2 exon
chr17:34059679-34059786
Length
54 bp
Sequences
Splice sites
3' ss Seq
GATTTCGCCTTTCTTCCTAGGGC
3' ss Score
9.57
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
Exon sequences
Seq C1 exon
GGTGAAGTGGGAGACCCTGGACAGAAGGGAACCAAAGGAAACAAGGGTGAACAT
Seq A exon
GGCCCTCCTGGACCTCCTGGTCCCATCGGGCCTGTGGGGCAACCTGGAGCTGCG
Seq C2 exon
GGAGCTGATGGTGAGCCTGGAGCTCGGGGACCCCAGGGACACTTTGGAGCCAAAGGTGATGAAGGAACAAGAGGGTTCAATGGACCCCCGGGACCCATCGGCCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024330-'51-55,'51-54,59-55=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:
PF0139113=Collagen=PD(1.4=5.6),PF0139113=Collagen=FE(19.5=100),PF0139113=Collagen=PU(16.3=77.8)
A:
PF0139113=Collagen=FE(19.5=100),PF0139113=Collagen=PU(13.3=44.4)
C2:
PF0139113=Collagen=PD(9.2=22.2),PF0139113=Collagen=FE(58.3=100),PF0139113=Collagen=PU(9.6=22.2)
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:
GGAACCAAAGGAAACAAGGGTG
R:
CTGTAGGCCGATGGGTCCC
Band lengths:
135-189
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