MmuEX6056191 @ mm9
Exon Skipping
Gene
ENSMUSG00000022483 | Col2a1
Description
collagen, type II, alpha 1 [Source:MGI Symbol;Acc:MGI:88452]
Coordinates
chr15:97808152-97809362:-
Coord C1 exon
chr15:97809309-97809362
Coord A exon
chr15:97808769-97808876
Coord C2 exon
chr15:97808152-97808440
Length
108 bp
Sequences
Splice sites
3' ss Seq
TCCTCTCTCTTGGCTTATAGGGT
3' ss Score
9.59
5' ss Seq
GTTGTAAGT
5' ss Score
8.3
Exon sequences
Seq C1 exon
GGTCCTTCTGGAGATCAGGGTGCTTCTGGCCCTGCTGGTCCTTCTGGCCCTAGA
Seq A exon
GGTCCACCTGGCCCTGTTGGTCCCTCTGGCAAAGATGGCTCTAATGGAATCCCTGGCCCCATCGGGCCTCCAGGTCCCCGTGGACGCTCAGGAGAAACAGGCCCTGTT
Seq C2 exon
GGTCCCCCTGGAAGTCCCGGTCCTCCTGGCCCTCCAGGTCCTCCTGGTCCTGGCATCGACATGTCAGCCTTTGCTGGCTTAGGGCAGAGAGAGAAGGGCCCCGACCCCATGCAGTACATGCGGGCCGACGAGGCAGACAGTACCTTGAGACAGCACGACGTGGAGGTGGACGCTACACTCAAGTCACTGAACAACCAGATTGAGAGCATCCGCAGCCCCGACGGCTCCCGCAAGAACCCTGCTCGCACTTGCCAAGACCTGAAACTCTGCCACCCCGAGTGGAAGAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022483-'59-56,'59-55,60-56=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=0.907
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(24.6=88.9),PF0139113=Collagen=PU(11.1=38.9)
A:
PF0139113=Collagen=PD(10.7=22.2),PF0139113=Collagen=FE(54.7=100)
C2:
PF0139113=Collagen=PD(28.1=18.6),PF0141013=COLFI=PU(12.4=27.8)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCCTTCTGGAGATCAGGGT
R:
CAGTGACTTGAGTGTAGCGTCC
Band lengths:
243-351
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: