MmuEX0012150 @ mm9
Exon Skipping
Gene
ENSMUSG00000058806 | Col13a1
Description
collagen, type XIII, alpha 1 [Source:MGI Symbol;Acc:MGI:1277201]
Coordinates
chr10:61349997-61355730:-
Coord C1 exon
chr10:61355704-61355730
Coord A exon
chr10:61353956-61354012
Coord C2 exon
chr10:61349997-61350104
Length
57 bp
Sequences
Splice sites
3' ss Seq
TCTGCTGCCTTCCAAACCAGGAG
3' ss Score
8.08
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
Exon sequences
Seq C1 exon
GGTCAGTGTGGAGAGTACCCACACAGG
Seq A exon
GAGTACCCAGGCGGCATGCTAGCAGCTCTGCGCTCCAACCCGATAATGTCCCTAAAG
Seq C2 exon
GGGGAACAAAGTCAGACTGGCATCCAAGGCCCTCCAGGGCCACCGGGCCCCCCAGGACCAAGTGGCCCTCTGGGACACCCAGGACTGCCAGGGCCTATAGGGCCACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058806_MULTIEX3-1/2=C1-C2
Average complexity
ME(1-2[100=100])
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.825 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(8.1=55.6),PF0139113=Collagen=FE(9.1=100)
A:
PF0139113=Collagen=PU(1.6=5.3)
C2:
PF0139113=Collagen=FE(56.5=100),PF0139113=Collagen=PU(20.0=30.6)
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCAGTGTGGAGAGTACCCA
R:
CTATAGGCCCTGGCAGTCCTG
Band lengths:
127-184
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: