MmuEX6099924 @ mm10
Exon Skipping
Gene
ENSMUSG00000026837 | Col5a1
Description
collagen, type V, alpha 1 [Source:MGI Symbol;Acc:MGI:88457]
Coordinates
chr2:28003861-28005286:+
Coord C1 exon
chr2:28003861-28003950
Coord A exon
chr2:28004042-28004095
Coord C2 exon
chr2:28005179-28005286
Length
54 bp
Sequences
Splice sites
3' ss Seq
AAATTCTTACTGCTTCTCAGGGA
3' ss Score
5.88
5' ss Seq
GCGGTAAGT
5' ss Score
11.37
Exon sequences
Seq C1 exon
GGTGACCCAGGTCCTGCTGGCCTCCCTGGGAAGGATGGCCCTCCAGGATTGCGTGGATTCCCTGGGGACCGAGGGCTACCTGGCCCCGTG
Seq A exon
GGAGCCCTTGGACTCAAAGGCAGTGAAGGCCCCCCTGGCCCACCAGGTCCTGCG
Seq C2 exon
GGTTCTCCAGGGGAGAGAGGACCAGCTGGTGCCGCTGGGCCCATCGGAATTCCAGGGAGACCTGGGCCTCAGGGACCTCCGGGGCCTGCTGGAGAGAAAGGACTTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026837-'59-51,'59-50,60-51
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=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(38.7=100),PF0139113=Collagen=PU(2.1=6.7)
A:
PF0139113=Collagen=FE(22.7=100),PF0139113=Collagen=FE(17.7=100)
C2:
PF0139113=Collagen=PD(26.7=55.6),PF0139113=Collagen=FE(36.5=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTGCGTGGATTCCCTGGG
R:
AGTCCTTTCTCTCCAGCAGGC
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