MmuEX6099922 @ mm10
Exon Skipping
Gene
ENSMUSG00000026837 | Col5a1
Description
collagen, type V, alpha 1 [Source:MGI Symbol;Acc:MGI:88457]
Coordinates
chr2:28005179-28009161:+
Coord C1 exon
chr2:28005179-28005286
Coord A exon
chr2:28007748-28007855
Coord C2 exon
chr2:28009108-28009161
Length
108 bp
Sequences
Splice sites
3' ss Seq
CAATGGCCTGTCCTCTCTAGGGC
3' ss Score
8.5
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
Exon sequences
Seq C1 exon
GGTTCTCCAGGGGAGAGAGGACCAGCTGGTGCCGCTGGGCCCATCGGAATTCCAGGGAGACCTGGGCCTCAGGGACCTCCGGGGCCTGCTGGAGAGAAAGGACTTCCT
Seq A exon
GGCGAGAAAGGTCCACAAGGCCCAGCTGGCCGAGATGGCCTCCAAGGTCCCGTGGGGCTCCCTGGACCAGCCGGCCCAGTGGGTCCTCCTGGAGAAGATGGAGATAAG
Seq C2 exon
GGAGAGATCGGAGAGCCAGGGCAGAAGGGAAGCAAGGGCGACAAAGGCGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026837-'61-57,'61-55,63-57
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=PD(26.7=55.6),PF0139113=Collagen=FE(36.5=100)
A:
PF0139113=Collagen=FE(36.5=100)
C2:
PF0139113=Collagen=PD(2.1=11.1)
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:
TCCAGGGGAGAGAGGACCAG
R:
CTCGCCTTTGTCGCCCTTG
Band lengths:
154-262
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