MmuEX6088983 @ mm9
Exon Skipping
Gene
ENSMUSG00000001506 | Col1a1
Description
collagen, type I, alpha 1 [Source:MGI Symbol;Acc:MGI:88467]
Coordinates
chr11:94802416-94802747:+
Coord C1 exon
chr11:94802416-94802469
Coord A exon
chr11:94802551-94802595
Coord C2 exon
chr11:94802694-94802747
Length
45 bp
Sequences
Splice sites
3' ss Seq
ACTCTGTTCTCTGTTCCTAGGGA
3' ss Score
11.22
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
Exon sequences
Seq C1 exon
GGCTTCAGTGGTTTGGATGGTGCCAAAGGAGATGCTGGTCCTGCTGGTCCTAAG
Seq A exon
GGAGAGCCCGGCAGTCCTGGTGAAAACGGAGCTCCTGGCCAGATG
Seq C2 exon
GGTCCCCGAGGTCTGCCCGGTGAGAGAGGTCGCCCTGGACCTCCTGGCACTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001506-'14-14,'14-13,15-14=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(28.3=100)
A:
PF0139113=Collagen=PD(13.3=53.3),PF0139113=Collagen=PU(12.7=53.3)
C2:
PF0139113=Collagen=FE(28.3=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTTCAGTGGTTTGGATGGT
R:
AGCAGTGCCAGGAGGTCC
Band lengths:
108-153
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: