RnoEX6011210 @ rn6
Exon Skipping
Gene
ENSRNOG00000023148 | Col11a1
Description
collagen type XI alpha 1 chain [Source:RGD Symbol;Acc:2372]
Coordinates
chr2:216965440-216970451:+
Coord C1 exon
chr2:216965440-216965493
Coord A exon
chr2:216967518-216967625
Coord C2 exon
chr2:216970398-216970451
Length
108 bp
Sequences
Splice sites
3' ss Seq
AATGTTACTTTGCATTTCAGGGC
3' ss Score
8.78
5' ss Seq
AAGGTTGGT
5' ss Score
8.46
Exon sequences
Seq C1 exon
GGTGAAGATGGCTTTCCAGGATTCAAAGGTGACATGGGTCTTAAAGGTGACAGA
Seq A exon
GGCGAAGTGGGTCAAGTTGGTCCAAGAGGAGAAGATGGCCCTGAAGGCCCCAAAGGCCGTGCAGGCCCAACTGGAGACCCAGGTCCCTCTGGCCAAGCAGGAGAGAAG
Seq C2 exon
GGAAAACTTGGGGTTCCAGGATTGCCAGGATATCCAGGAAGACAAGGTCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023148-'33-35,'33-34,34-35=AN
Average complexity
A_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=0.944
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(28.3=100),PF0139113=Collagen=PU(4.9=16.7)
A:
PF0139113=Collagen=PD(13.3=22.2),PF0139113=Collagen=FE(57.4=100)
C2:
PF0139113=Collagen=FE(27.9=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:
TGGCTTTCCAGGATTCAAAGGT
R:
CTTTGGACCTTGTCTTCCTGGA
Band lengths:
100-208
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]