RnoEX0023156 @ rn6
Exon Skipping
Gene
ENSRNOG00000058560 | Col2a1
Description
collagen type II alpha 1 chain [Source:RGD Symbol;Acc:2375]
Coordinates
chr7:139458732-139459355:-
Coord C1 exon
chr7:139459248-139459355
Coord A exon
chr7:139458980-139459033
Coord C2 exon
chr7:139458732-139458839
Length
54 bp
Sequences
Splice sites
3' ss Seq
ACCTCATGTCCCTTGTCCAGGGC
3' ss Score
8.94
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
GGTGAGCCCGGCAAGCAGGGTGCACCTGGTGCATCTGGAGACAGAGGTCCTCCTGGTCCTGTGGGGCCTCCTGGCTTGACAGGACCTGCAGGTGAACCTGGACGAGAG
Seq A exon
GGCAGCCCTGGTGCTGATGGACCCCCTGGCAGAGATGGTGCGGCTGGAGTCAAG
Seq C2 exon
GGTGATCGTGGTGAGACTGGTGCACTTGGTGCTCCTGGAGCTCCTGGGCCCCCAGGCTCTCCTGGTCCTGCTGGCCCAACTGGCAAACAAGGAGACAGAGGAGAGGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000058560-'54-46,'54-45,55-46
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:
NO
A:
PF0139113=Collagen=PU(16.1=77.8)
C2:
PF0139113=Collagen=FE(40.2=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:
GCTTGACAGGACCTGCAGG
R:
GCCTCTCCTCTGTCTCCTTGT
Band lengths:
142-196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]