RnoEX0022766 @ rn6
Exon Skipping
Gene
ENSRNOG00000023148 | Col11a1
Description
collagen type XI alpha 1 chain [Source:RGD Symbol;Acc:2372]
Coordinates
chr2:217029052-217029933:+
Coord C1 exon
chr2:217029052-217029105
Coord A exon
chr2:217029229-217029336
Coord C2 exon
chr2:217029880-217029933
Length
108 bp
Sequences
Splice sites
3' ss Seq
ACGGGTTTCCTTTCACACAGGGA
3' ss Score
7.64
5' ss Seq
GTGGTAAGC
5' ss Score
8.15
Exon sequences
Seq C1 exon
GGTCCGCCTGGAGCTTCCGGTTCCGAAGGAAGGCAAGGAGAGAAAGGTGCTAAG
Seq A exon
GGAGAAGCTGGAGCTGAAGGACCTCCTGGGAAAACTGGCCCGGTCGGACCTCAGGGTCCTTCTGGAAAGCCTGGTCCAGAAGGTCTTCGAGGCATCCCTGGTCCTGTG
Seq C2 exon
GGAGAACAAGGTCTCCCCGGTGCTGCTGGCCAAGATGGACCCCCTGGTCCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023148-'63-65,'63-64,64-65
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:
NO
A:
PF0139113=Collagen=PU(42.1=88.9)
C2:
PF0139113=Collagen=FE(22.4=100),PF0139113=Collagen=PU(6.5=27.8)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGCTTCCGGTTCCGAAG
R:
AGGGGGTCCATCTTGGCC
Band lengths:
91-199
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]