MmuEX6093888 @ mm9
Exon Skipping
Gene
ENSMUSG00000045672 | Col27a1
Description
collagen, type XXVII, alpha 1 [Source:MGI Symbol;Acc:MGI:2672118]
Coordinates
chr4:62964068-62967773:+
Coord C1 exon
chr4:62964068-62964121
Coord A exon
chr4:62966219-62966272
Coord C2 exon
chr4:62967720-62967773
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-'42-41,'42-40,43-41=AN
Average complexity
A_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(16.8=100),PF0139113=Collagen=PU(5.7=27.8)
A:
PF0139113=Collagen=FE(16.8=100),PF0139113=Collagen=FE(19.3=100)
C2:
PF0139113=Collagen=PD(9.9=55.6),PF0139113=Collagen=FE(19.3=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
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:
GGTGCAGTGGGAGAGCCT
R:
CCCATCTGGCCCCACAGG
Band lengths:
93-147
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: