MmuEX6099923 @ mm9
Exon Skipping
Gene
ENSMUSG00000026837 | Col5a1
Description
collagen, type V, alpha 1 [Source:MGI Symbol;Acc:MGI:88457]
Coordinates
chr2:27859562-27863375:+
Coord C1 exon
chr2:27859562-27859615
Coord A exon
chr2:27860699-27860806
Coord C2 exon
chr2:27863268-27863375
Length
108 bp
Sequences
Splice sites
3' ss Seq
CTTTTCTTACTGCTCTGTAGGGT
3' ss Score
9.06
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
Exon sequences
Seq C1 exon
GGAGCCCTTGGACTCAAAGGCAGTGAAGGCCCCCCTGGCCCACCAGGTCCTGCG
Seq A exon
GGTTCTCCAGGGGAGAGAGGACCAGCTGGTGCCGCTGGGCCCATCGGAATTCCAGGGAGACCTGGGCCTCAGGGACCTCCGGGGCCTGCTGGAGAGAAAGGACTTCCT
Seq C2 exon
GGCGAGAAAGGTCCACAAGGCCCAGCTGGCCGAGATGGCCTCCAAGGTCCCGTGGGGCTCCCTGGACCAGCCGGCCCAGTGGGTCCTCCTGGAGAAGATGGAGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026837-'41-42,'41-41,42-42=AN
Average complexity
A_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(22.7=100),PF0139113=Collagen=FE(17.7=100)
A:
PF0139113=Collagen=PD(26.7=55.6),PF0139113=Collagen=FE(36.5=100)
C2:
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:
GGAGCCCTTGGACTCAAAGG
R:
CTTATCTCCATCTTCTCCAGGAGGA
Band lengths:
162-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: