DreEX0022811 @ danRer10
Exon Skipping
Gene
ENSDARG00000026165 | col11a1a
Description
collagen, type XI, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-070209-167]
Coordinates
chr24:28753696-28762035:-
Coord C1 exon
chr24:28761979-28762035
Coord A exon
chr24:28755764-28755808
Coord C2 exon
chr24:28753696-28753740
Length
45 bp
Sequences
Splice sites
3' ss Seq
TGCGCAATTGATTTCTGCAGGGC
3' ss Score
6.56
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
Exon sequences
Seq C1 exon
CTCGCCATGAGAGGTCCACCGGGTCCAATGGGTCTCACTGGACGATCTGGACCAGTG
Seq A exon
GGCATTGCTGGTGTTGATGGTCCGCAGGGTCCCAAAGGAAACATG
Seq C2 exon
GGTCTTCCAGGTCCACAGGGACCCATCGGACCACCCGGAGAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026165_MULTIEX1-6/42=C1-8
Average complexity
C3
Mappability confidence:
97%=100=97%
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(25.8=84.2)
A:
PF0139113=Collagen=FE(17.1=100),PF0139113=Collagen=FE(19.7=100),PF0139113=Collagen=PU(9.6=53.3)
C2:
PF0139113=Collagen=PD(2.3=13.3),PF0139113=Collagen=FE(16.7=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:
TCGCCATGAGAGGTCCACC
R:
GGGTGGTCCGATGGGTCC
Band lengths:
92-137
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]