Special

RnoEX0022756 @ rn6

Exon Skipping

Gene
Description
collagen type XI alpha 1 chain [Source:RGD Symbol;Acc:2372]
Coordinates
chr2:216950372-216951208:+
Coord C1 exon
chr2:216950372-216950425
Coord A exon
chr2:216950918-216950962
Coord C2 exon
chr2:216951155-216951208
Length
45 bp
Sequences
Splice sites
3' ss Seq
TGTTTTGTTCTTCATTGAAGGGT
3' ss Score
8.08
5' ss Seq
ATGGTATGT
5' ss Score
8.35
Exon sequences
Seq C1 exon
GGTCCACGAGGCTTGCTGGGACCAAGGGGCACTCCAGGACCTCCTGGGCAGCCT
Seq A exon
GGTATTGGAGGTATAGATGGCCCCCAAGGACCAAAAGGAAACATG
Seq C2 exon
GGTCCTCAAGGGGAGCCTGGACCACCAGGTCAGCAAGGAAATCCAGGACCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023148-'25-27,'25-26,26-27
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=FE(22.4=100),PF0139113=Collagen=FE(25.0=100)
A:
PF0139113=Collagen=PD(15.8=80.0),PF0139113=Collagen=FE(20.6=100),PF0139113=Collagen=PU(9.9=53.3)
C2:
PF0139113=Collagen=FE(18.5=100),PF0139113=Collagen=PU(12.3=44.4)


Main Inclusion Isoform:


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCCACGAGGCTTGCTG
R:
TTGAGGTCCTGGATTTCCTTGC
Band lengths:
108-153
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]