MmuEX0012260 @ mm10
Exon Skipping
Gene
ENSMUSG00000045672 | Col27a1
Description
collagen, type XXVII, alpha 1 [Source:MGI Symbol;Acc:MGI:2672118]
Coordinates
chr4:63235330-63245122:+
Coord C1 exon
chr4:63235330-63235383
Coord A exon
chr4:63243995-63244048
Coord C2 exon
chr4:63245069-63245122
Length
54 bp
Sequences
Splice sites
3' ss Seq
GCAGACTTGTTTTATTTCAGGGA
3' ss Score
6.49
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
Exon sequences
Seq C1 exon
GGTCCTCCTGGGCCGTACGGGAACCCAGGCCCACCTGGCCCTCCAGGAGCCAAA
Seq A exon
GGACAGAAAGGGGACCCAGGACTCTCACCAGGACAGGCTCACGATGGAGCAAAG
Seq C2 exon
GGCAACATGGGCTTGCCTGGGCTCTCCGGAAATCCAGGACCCTTGGGAAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000045672-'13-15,'13-13,15-15=AN
Average complexity
A_S
Mappability confidence:
NA
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(27.4=100),PF0139113=Collagen=PU(12.6=61.1)
A:
PF0139113=Collagen=PD(19.4=66.7),PF0139113=Collagen=PU(13.6=50.0)
C2:
PF0139113=Collagen=FE(25.8=100),PF0139113=Collagen=PU(2.2=11.1)
Main Skipping Isoform:
NA
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:
GTCCTCCTGGGCCGTACG
R:
TCCCAAGGGTCCTGGATTTCC
Band lengths:
101-155
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