MmuEX6093888 @ mm10
Exon Skipping
Gene
ENSMUSG00000045672 | Col27a1
Description
collagen, type XXVII, alpha 1 [Source:MGI Symbol;Acc:MGI:2672118]
Coordinates
chr4:63303034-63306739:+
Coord C1 exon
chr4:63303034-63303087
Coord A exon
chr4:63305185-63305238
Coord C2 exon
chr4:63306686-63306739
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTGTGTTTGGCCTCTCCTAGGGT
3' ss Score
7.87
5' ss Seq
CGGGTAAGT
5' ss Score
10.75
Exon sequences
Seq C1 exon
GGACCGCCGGGTGCAGTGGGAGAGCCTGGCCTTCCTGGGGACTCCGGAATGAAG
Seq A exon
GGTGACCTCGGACCTCTGGGCCCCCCTGGGGAGCAAGGTCTTATTGGGCAGCGG
Seq C2 exon
GGAGAGCCAGGCCTTGAGGGAGACCATGGCCCTGTGGGGCCAGATGGGCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000045672-'57-52,'57-51,58-52
Average complexity
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(20.2=100),PF0139113=Collagen=PU(6.0=27.8)
A:
PF0139113=Collagen=FE(20.2=100),PF0139113=Collagen=FE(20.5=100)
C2:
PF0139113=Collagen=PD(11.9=55.6),PF0139113=Collagen=FE(20.5=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGCAGTGGGAGAGCCT
R:
CCCATCTGGCCCCACAGG
Band lengths:
93-147
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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