DreEX0022800 @ danRer10
Exon Skipping
Gene
ENSDARG00000026165 | col11a1a
Description
collagen, type XI, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-070209-167]
Coordinates
chr24:28697677-28724469:-
Coord C1 exon
chr24:28724362-28724469
Coord A exon
chr24:28718200-28718253
Coord C2 exon
chr24:28697677-28697730
Length
54 bp
Sequences
Splice sites
3' ss Seq
TAATATCCATTTTTTAACAGGGT
3' ss Score
7.44
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
Exon sequences
Seq C1 exon
GGAGCAGATGGCGAGCCCGGTCCTCGTGGACAGCAGGGTATGTTTGGACAGAAGGGAGATGAAGGATCCCGGGGCTTCCCTGGACCTCCTGGTCCCATCGGTCTGCAG
Seq A exon
GGTCTTCCAGGACCACCTGGCGAGAAAGGTGAAAATGGAGATGTTGGTCCTATG
Seq C2 exon
GGTCCTGCTGGTCAAAAAGGAGACACTGGCACGGTTGGACCTCCTGGGCCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026165_MULTIEX1-31/42=30-42
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=FE(56.5=100),PF0139113=Collagen=FE(54.7=100)
A:
PF0139113=Collagen=PD(3.2=11.1),PF0139113=Collagen=FE(26.6=100)
C2:
PF0139113=Collagen=FE(28.3=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGGACAGCAGGGTATGTTT
R:
GAGGCCCAGGAGGTCCAAC
Band lengths:
136-190
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]