DreEX6043039 @ danRer10
Exon Skipping
Gene
ENSDARG00000101258 | COL27A1 (2 of 2)
Description
collagen, type XXVII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:22986]
Coordinates
chr16:52001105-52002030:+
Coord C1 exon
chr16:52001105-52001131
Coord A exon
chr16:52001612-52001677
Coord C2 exon
chr16:52001862-52002030
Length
66 bp
Sequences
Splice sites
3' ss Seq
CATGTGTGTGTGTGTTGCAGAAT
3' ss Score
11.31
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
Exon sequences
Seq C1 exon
GGCCCTCCGGGAATCCCGCTGGCCATG
Seq A exon
AATCAGGATTTTGGTCTCGGTGTAGTTCAGCCAGTTTTCAGAGAGACTCATACACAGAAAATTGAG
Seq C2 exon
GGTCGGGGTCTACTGGACATGCCCATGTTGGATCAGGCTCCAGAGATCCTGCGAACGCTTGATTATCTGAGCTCTCTAGTGCACAGCCTGAAGAACCCACTGGGCACACGAGACCATCCCGCTCGACTCTGCAGAGACCTGCATGACTGCCGGGACACGCTTTACGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101258-'58-53,'58-52,59-53=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=0.500 C2=0.105
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(14.0=100)
A:
NO
C2:
PF0141013=COLFI=PU(39.7=47.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAATCCCGCTGGCCATG
R:
GTAAAGCGTGTCCCGGCAG
Band lengths:
183-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]