DreEX0022772 @ danRer10
Exon Skipping
Gene
ENSDARG00000026165 | col11a1a
Description
collagen, type XI, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-070209-167]
Coordinates
chr24:28697677-28699318:-
Coord C1 exon
chr24:28699265-28699318
Coord A exon
chr24:28697820-28697855
Coord C2 exon
chr24:28697677-28697730
Length
36 bp
Sequences
Splice sites
3' ss Seq
ATGCCTTTTCTTTTCATTAGGGT
3' ss Score
9.77
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
Exon sequences
Seq C1 exon
GGCATCAGTGGTGCTTCTGGTCCAATTGGTCCTCCTGGTCCTCCTGGATTGCCT
Seq A exon
GGTCCACAAGGGCCAAAGGGATCCAAGGGTTCAACT
Seq C2 exon
GGTCCTGCTGGTCAAAAAGGAGACACTGGCACGGTTGGACCTCCTGGGCCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026165-'67-66,'67-65,68-66
Average complexity
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=PD(14.1=55.6),PF0139113=Collagen=FE(28.3=100)
A:
PF0139113=Collagen=FE(18.3=100)
C2:
PF0139113=Collagen=FE(28.3=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCAGTGGTGCTTCTGGTCC
R:
GAGGCCCAGGAGGTCCAAC
Band lengths:
104-140
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]