RnoEX6033864 @ rn6
Exon Skipping
Gene
ENSRNOG00000058560 | Col2a1
Description
collagen type II alpha 1 chain [Source:RGD Symbol;Acc:2375]
Coordinates
chr7:139461166-139462147:-
Coord C1 exon
chr7:139462094-139462147
Coord A exon
chr7:139461703-139461810
Coord C2 exon
chr7:139461166-139461219
Length
108 bp
Sequences
Splice sites
3' ss Seq
GTCCCTTCTTTGTGTTGCAGGGT
3' ss Score
10.78
5' ss Seq
CAGGTGAAT
5' ss Score
6.6
Exon sequences
Seq C1 exon
GGTGAGCGCGGAGAGACTGGGCCACCTGGACCTGCTGGATTCGCTGGCCCTCCT
Seq A exon
GGTGCTGATGGCCAGCCTGGTGCCAAGGGCGATCAAGGAGAAGCTGGACAGAAAGGTGACGCTGGTGCCCCTGGCCCACAAGGCCCCTCAGGAGCTCCCGGGCCACAG
Seq C2 exon
GGTCCTACTGGAGTGACTGGTCCTAAGGGAGCCCGGGGCGCCCAAGGCCCACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000058560-'48-40,'48-39,49-40=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(18.3=100),PF0139113=Collagen=PU(2.5=11.1)
A:
PF0139113=Collagen=PD(21.5=55.6),PF0139113=Collagen=FE(44.3=100)
C2:
PF0139113=Collagen=FE(21.5=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:
GGTGAGCGCGGAGAGACT
R:
CCGGGCTCCCTTAGGACC
Band lengths:
90-198
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]