RnoEX6033850 @ rn6
Exon Skipping
Gene
ENSRNOG00000058560 | Col2a1
Description
collagen type II alpha 1 chain [Source:RGD Symbol;Acc:2375]
Coordinates
chr7:139469907-139473238:-
Coord C1 exon
chr7:139473185-139473238
Coord A exon
chr7:139470344-139470388
Coord C2 exon
chr7:139469907-139469960
Length
45 bp
Sequences
Splice sites
3' ss Seq
TTTTTCCTTGTTGTTCACAGGGT
3' ss Score
10.55
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
Exon sequences
Seq C1 exon
GGTCCCCGTGGCCTGCCTGGCGAGAGAGGACGGACTGGCCCTGCTGGTGCTGCT
Seq A exon
GGTGCTCGAGGCAACGACGGCCAGCCAGGCCCTGCTGGACCTCCG
Seq C2 exon
GGTCCTGTTGGTCCTGCAGGTGGTCCTGGCTTCCCTGGTGCTCCTGGTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000058560-'20-17,'20-16,22-17=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=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(20.7=100)
A:
PF0139113=Collagen=FE(17.1=100),PF0139113=Collagen=PU(8.9=53.3)
C2:
PF0139113=Collagen=FE(20.7=100),PF0139113=Collagen=FE(18.9=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:
CTGGCGAGAGAGGACGGAC
R:
CTTGGCACCAGGAGCACC
Band lengths:
92-137
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]