MmuEX0012246 @ mm9
Exon Skipping
Gene
ENSMUSG00000058897 | Col25a1
Description
collagen, type XXV, alpha 1 [Source:MGI Symbol;Acc:MGI:1924268]
Coordinates
chr3:130142231-130179394:+
Coord C1 exon
chr3:130142231-130142257
Coord A exon
chr3:130178511-130178582
Coord C2 exon
chr3:130179287-130179394
Length
72 bp
Sequences
Splice sites
3' ss Seq
GACCTCACCTGACTGATCAGATG
3' ss Score
3.78
5' ss Seq
AAGGTAGTG
5' ss Score
5.56
Exon sequences
Seq C1 exon
GGAGAACAAGGTGATCAGGGACCTCGG
Seq A exon
ATGGTGTTTCCTAAAATCAATCACGGCTTTCTCTCTGCTGATCAGCAGCTCATTAAACGCCGGCTGATTAAG
Seq C2 exon
GGTGACCAAGGACAGGCAGGGCCTCCAGGACCTCCAGGCCCTCCTGGTCCAAGAGGCCCACCTGGGGACACAGGAAAGGACGGCCCCCGAGGAATGCCAGGAGTACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058897-'7-8,'7-7,10-8
Average complexity
ME(6_9-7_10[100=91])
Mappability confidence:
90%=83=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.975 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(0.1=0.0),PF0139113=Collagen=PU(1.0=4.2)
A:
PF0139113=Collagen=FE(34.7=100)
C2:
PF0139113=Collagen=FE(67.9=100),PF0139113=Collagen=PU(35.1=54.1)
Other Inclusion Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAACAAGGTGATCAGGGAC
R:
AGGTACTCCTGGCATTCCTCG
Band lengths:
135-207
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: