RnoEX6033865 @ rn6
Exon Skipping
Gene
ENSRNOG00000058560 | Col2a1
Description
collagen type II alpha 1 chain [Source:RGD Symbol;Acc:2375]
Coordinates
chr7:139460698-139461810:-
Coord C1 exon
chr7:139461703-139461810
Coord A exon
chr7:139461166-139461219
Coord C2 exon
chr7:139460698-139460751
Length
54 bp
Sequences
Splice sites
3' ss Seq
TCATCTTCTTCCTGTCACAGGGT
3' ss Score
9.67
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
Exon sequences
Seq C1 exon
GGTGCTGATGGCCAGCCTGGTGCCAAGGGCGATCAAGGAGAAGCTGGACAGAAAGGTGACGCTGGTGCCCCTGGCCCACAAGGCCCCTCAGGAGCTCCCGGGCCACAG
Seq A exon
GGTCCTACTGGAGTGACTGGTCCTAAGGGAGCCCGGGGCGCCCAAGGCCCACCG
Seq C2 exon
GGAGCCACCGGATTCCCTGGAGCTGCTGGCCGAGTTGGACCCCCAGGTTCTAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000058560-'49-41,'49-40,50-41=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=PD(21.5=55.6),PF0139113=Collagen=FE(44.3=100)
A:
PF0139113=Collagen=FE(21.5=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:
GCGATCAAGGAGAAGCTGGAC
R:
TAGAACCTGGGGGTCCAACTC
Band lengths:
132-186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]