DreEX0022796 @ danRer10
Exon Skipping
Gene
ENSDARG00000026165 | col11a1a
Description
collagen, type XI, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-070209-167]
Coordinates
chr24:28697677-28727744:-
Coord C1 exon
chr24:28727637-28727744
Coord A exon
chr24:28726695-28726748
Coord C2 exon
chr24:28697677-28697730
Length
54 bp
Sequences
Splice sites
3' ss Seq
ATTTATTCACTTTTTTCCAGGGA
3' ss Score
8.24
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
Exon sequences
Seq C1 exon
GGAGAGAGAGGTCCTCTGGGTCCAGCCGGTAGGGATGGAGTTCAAGGTCCAGTTGGTCTGCCAGGTCCAGCAGGACCTCAGGGTCCACCTGGAGAAGATGGTGACAAG
Seq A exon
GGAGAAGTGGGTGAACCAGGCCAGAAGGGAAGCAAAGCTGACAAAGGAGAACAG
Seq C2 exon
GGTCCTGCTGGTCAAAAAGGAGACACTGGCACGGTTGGACCTCCTGGGCCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026165_MULTIEX1-28/42=27-42
Average complexity
C2
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=PU(41.0=88.9)
A:
PF0139113=Collagen=PU(6.5=22.2)
C2:
PF0139113=Collagen=FE(28.3=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAGGTCCTCTGGGTCCAG
R:
CCGTGCCAGTGTCTCCTTTTT
Band lengths:
137-191
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]