DreEX0022831 @ danRer10
Exon Skipping
Gene
ENSDARG00000009014 | col11a1b
Description
collagen, type XI, alpha 1b [Source:ZFIN;Acc:ZDB-GENE-070912-607]
Coordinates
chr2:15767799-15778695:-
Coord C1 exon
chr2:15778606-15778695
Coord A exon
chr2:15775682-15775735
Coord C2 exon
chr2:15767799-15767906
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTCTGTCACTTTTTTTGCAGGGT
3' ss Score
9.78
5' ss Seq
AGCGTAAGT
5' ss Score
10.07
Exon sequences
Seq C1 exon
GGTGATCCAGGTCCTCAGGGAATTTCTGGGAAACCTGGCCCTGCTGGATTGAAAGGGTTTCCAGGACAAAGGGGGCTTCCTGGCGCAGCG
Seq A exon
GGTCTGTCAGGTCTGAAGGGAGGCGAGGGTCCACAGGGTCCACAAGGCCCTAGC
Seq C2 exon
GGATCACCAGGAGAGAGAGGACCCGCTGGACCAGGAGGACCCATTGGCCAAACAGGACGCAACGGCCCTCAGGGACCCCCAGGACCTGCTGGAGAGAAGGGTGGTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000009014-'44-44,'44-43,45-44
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=FE(36.2=100)
A:
PF0139113=Collagen=FE(21.2=100),PF0139113=Collagen=PU(20.2=94.4)
C2:
PF0139113=Collagen=PD(16.2=36.1),PF0139113=Collagen=FE(41.7=100),PF0139113=Collagen=PU(3.6=8.3)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGATCCAGGTCCTCAGGGAA
R:
CTGTTTGGCCAATGGGTCCTC
Band lengths:
144-198
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]