MmuEX0012246 @ mm10
Exon Skipping
Gene
ENSMUSG00000058897 | Col25a1
Description
collagen, type XXV, alpha 1 [Source:MGI Symbol;Acc:MGI:1924268]
Coordinates
chr3:130439313-130476476:+
Coord C1 exon
chr3:130439313-130439339
Coord A exon
chr3:130475593-130475664
Coord C2 exon
chr3:130476369-130476476
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-'16-25,'16-24,21-25
Average complexity
ME(6_9-7_10[100=91])
Mappability confidence:
92%=88=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(17.0=100)
A:
PF0139113=Collagen=PD(0.1=0.0),PF0139113=Collagen=PU(1.5=4.2)
C2:
PF0139113=Collagen=FE(53.8=100)
Other Skipping Isoforms:
NA
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
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types