MmuEX6099926 @ mm9
Exon Skipping
Gene
ENSMUSG00000026837 | Col5a1
Description
collagen, type V, alpha 1 [Source:MGI Symbol;Acc:MGI:88457]
Coordinates
chr2:27857090-27859470:+
Coord C1 exon
chr2:27857090-27857143
Coord A exon
chr2:27858003-27858110
Coord C2 exon
chr2:27859381-27859470
Length
108 bp
Sequences
Splice sites
3' ss Seq
AACATTGTCTCTCCCCATAGGGT
3' ss Score
12.22
5' ss Seq
AAGGTAAGT
5' ss Score
11
Exon sequences
Seq C1 exon
GGTTTCCAAGGCAAGACTGGCCCTCCAGGGCCCCCAGGAGTGGTTGGCCCTCAG
Seq A exon
GGTCCCACAGGAGAGACGGGCCCCATGGGTGAGCGTGGCCATCCTGGTCCTCCAGGCCCTCCTGGTGAACAGGGCCTCCCAGGTGCTGCTGGGAAAGAAGGAACGAAG
Seq C2 exon
GGTGACCCAGGTCCTGCTGGCCTCCCTGGGAAGGATGGCCCTCCAGGATTGCGTGGATTCCCTGGGGACCGAGGGCTACCTGGCCCCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026837-'38-39,'38-38,39-39=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:
NO
A:
PF0139113=Collagen=PU(6.7=13.9)
C2:
PF0139113=Collagen=FE(38.7=100),PF0139113=Collagen=PU(2.1=6.7)
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:
GGTTTCCAAGGCAAGACTGG
R:
GCCAGGTAGCCCTCGGTC
Band lengths:
138-246
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: