MmuEX1007276 @ mm10
Exon Skipping
Gene
ENSMUSG00000045672 | Col27a1
Description
collagen, type XXVII, alpha 1 [Source:MGI Symbol;Acc:MGI:2672118]
Coordinates
chr4:63309522-63313479:+
Coord C1 exon
chr4:63309522-63309629
Coord A exon
chr4:63312690-63312717
Coord C2 exon
chr4:63313426-63313479
Length
28 bp
Sequences
Splice sites
3' ss Seq
TTCTGGACTAAAATTTTCAGATC
3' ss Score
5.07
5' ss Seq
GATGTAAGT
5' ss Score
9.11
Exon sequences
Seq C1 exon
GGCGACAGGGGCGACCCAGGGCCCGATGGCGAGCATGGTGAAAAGGGCCAGGAAGGGCTGAAAGGAGAGGATGGGTCCCCTGGGCCCCCGGGCATCACTGGCGTCCCG
Seq A exon
ATCCATCCACAGACACTCCAGCTCAGAT
Seq C2 exon
GGTCGTGAGGGGAAGCCGGGCAAGCAGGGTGAGAAAGGCCAGAGGGGAGCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000045672_CASSETTE5
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(39.8=100),PF0139113=Collagen=PU(22.7=47.2)
A:
PF0139113=Collagen=PD(3.3=20.0)
C2:
PF0139113=Collagen=PD(10.2=50.0),PF0139113=Collagen=FE(22.7=100)
Main Inclusion Isoform:
ENSMUST00000036300fB8051
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGGTGAAAAGGGCCAGGAA
R:
TTAGCTCCCCTCTGGCCTTTC
Band lengths:
128-156
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