RnoEX0022767 @ rn6
Exon Skipping
Gene
ENSRNOG00000023148 | Col11a1
Description
collagen type XI alpha 1 chain [Source:RGD Symbol;Acc:2372]
Coordinates
chr2:217029229-217039309:+
Coord C1 exon
chr2:217029229-217029336
Coord A exon
chr2:217029880-217029933
Coord C2 exon
chr2:217039256-217039309
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTGCATTTTCTTTTGTGTAGGGA
3' ss Score
8.06
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
Exon sequences
Seq C1 exon
GGAGAAGCTGGAGCTGAAGGACCTCCTGGGAAAACTGGCCCGGTCGGACCTCAGGGTCCTTCTGGAAAGCCTGGTCCAGAAGGTCTTCGAGGCATCCCTGGTCCTGTG
Seq A exon
GGAGAACAAGGTCTCCCCGGTGCTGCTGGCCAAGATGGACCCCCTGGTCCTCTG
Seq C2 exon
GGACCTCCTGGTTTACCTGGTCTCAAAGGTGATCCTGGCTCCAAGGGTGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023148-'64-66,'64-65,65-66
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=PU(42.1=88.9)
A:
PF0139113=Collagen=FE(22.4=100),PF0139113=Collagen=PU(6.5=27.8)
C2:
PF0139113=Collagen=FE(22.4=100),PF0139113=Collagen=FE(22.1=100)
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:
AGGACCTCCTGGGAAAACTGG
R:
TGGAGCCAGGATCACCTTTGA
Band lengths:
134-188
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]