RnoEX6033867 @ rn6
Exon Skipping
Gene
ENSRNOG00000058560 | Col2a1
Description
collagen type II alpha 1 chain [Source:RGD Symbol;Acc:2375]
Coordinates
chr7:139458274-139458839:-
Coord C1 exon
chr7:139458732-139458839
Coord A exon
chr7:139458494-139458547
Coord C2 exon
chr7:139458274-139458381
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTCTTGCTCTCCCCTCTCAGGGT
3' ss Score
11.27
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
Exon sequences
Seq C1 exon
GGTGATCGTGGTGAGACTGGTGCACTTGGTGCTCCTGGAGCTCCTGGGCCCCCAGGCTCTCCTGGTCCTGCTGGCCCAACTGGCAAACAAGGAGACAGAGGAGAGGCT
Seq A exon
GGTGCACAAGGTCCTATGGGCCCCTCAGGACCTGCTGGAGCCCGTGGAATTGCT
Seq C2 exon
GGCCCTCAAGGCCCCCGAGGTGACAAAGGAGAAGCTGGAGAGCCTGGCGAGAGAGGACTGAAGGGGCACCGAGGTTTCACTGGACTGCAGGGTCTGCCTGGCCCCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000058560-'56-48,'56-47,57-48=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(40.2=100)
A:
PF0139113=Collagen=FE(19.5=100),PF0139113=Collagen=PU(13.4=61.1)
C2:
PF0139113=Collagen=PD(19.5=47.2),PF0139113=Collagen=FE(42.7=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:
GTGATCGTGGTGAGACTGGTG
R:
GCTTCTCCTTTGTCACCTCGG
Band lengths:
142-196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]