RnoEX6033857 @ rn6
Exon Skipping
Gene
ENSRNOG00000058560 | Col2a1
Description
collagen type II alpha 1 chain [Source:RGD Symbol;Acc:2375]
Coordinates
chr7:139464739-139465566:-
Coord C1 exon
chr7:139465513-139465566
Coord A exon
chr7:139465073-139465126
Coord C2 exon
chr7:139464739-139464792
Length
54 bp
Sequences
Splice sites
3' ss Seq
CCTCTTCCTCTGCCCTCTAGGGT
3' ss Score
10.8
5' ss Seq
AGCGTAAGT
5' ss Score
10.07
Exon sequences
Seq C1 exon
GGCGAGCCTGGCAAAGCTGGTGAGAAAGGACTGGCTGGTGCTCCTGGTCTGAGA
Seq A exon
GGTCTTCCTGGCAAAGATGGTGAGACAGGAGCCGCAGGACCCCCCGGCCCCAGC
Seq C2 exon
GGACCTGCTGGTGAACGAGGCGAGCAGGGTGCTCCTGGGCCATCAGGGTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000058560-'38-29,'38-28,39-29=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(20.5=100),PF0139113=Collagen=PU(17.5=94.4)
A:
PF0139113=Collagen=FE(20.5=100),PF0139113=Collagen=FE(17.5=100)
C2:
PF0139113=Collagen=PD(15.7=72.2),PF0139113=Collagen=FE(17.5=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:
TGGCAAAGCTGGTGAGAAAGG
R:
CTGGAACCCTGATGGCCCAG
Band lengths:
100-154
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]