RnoEX0023157 @ rn6
Exon Skipping
Gene
ENSRNOG00000058560 | Col2a1
Description
collagen type II alpha 1 chain [Source:RGD Symbol;Acc:2375]
Coordinates
chr7:139458494-139459033:-
Coord C1 exon
chr7:139458980-139459033
Coord A exon
chr7:139458732-139458839
Coord C2 exon
chr7:139458494-139458547
Length
108 bp
Sequences
Splice sites
3' ss Seq
CTGATACCTTGCTCCTACAGGGT
3' ss Score
9.76
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
Exon sequences
Seq C1 exon
GGCAGCCCTGGTGCTGATGGACCCCCTGGCAGAGATGGTGCGGCTGGAGTCAAG
Seq A exon
GGTGATCGTGGTGAGACTGGTGCACTTGGTGCTCCTGGAGCTCCTGGGCCCCCAGGCTCTCCTGGTCCTGCTGGCCCAACTGGCAAACAAGGAGACAGAGGAGAGGCT
Seq C2 exon
GGTGCACAAGGTCCTATGGGCCCCTCAGGACCTGCTGGAGCCCGTGGAATTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000058560-'55-47,'55-46,56-47
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(16.1=77.8)
A:
PF0139113=Collagen=FE(40.2=100)
C2:
PF0139113=Collagen=FE(19.5=100),PF0139113=Collagen=PU(13.4=61.1)
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:
CAGCCCTGGTGCTGATGGA
R:
AGCAATTCCACGGGCTCCAG
Band lengths:
106-214
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]