RnoEX6033861 @ rn6
Exon Skipping
Gene
ENSRNOG00000058560 | Col2a1
Description
collagen type II alpha 1 chain [Source:RGD Symbol;Acc:2375]
Coordinates
chr7:139462864-139463703:-
Coord C1 exon
chr7:139463596-139463703
Coord A exon
chr7:139463181-139463234
Coord C2 exon
chr7:139462864-139462917
Length
54 bp
Sequences
Splice sites
3' ss Seq
CCCGGCGTTCTCTCCTGCAGGGT
3' ss Score
12.48
5' ss Seq
CGAGTAAGT
5' ss Score
10.15
Exon sequences
Seq C1 exon
GGTGCGGCTGGCCCAGATGGTCCCCCTGGGGCTCAGGGCCCTCCAGGTCTACAGGGAATGCCTGGTGAGAGGGGAGCAGCTGGTATTGCTGGACCCAAGGGAGACAGA
Seq A exon
GGTGATGTTGGCGAGAAAGGCCCAGAGGGAGCTCCTGGAAAAGATGGTGGCCGA
Seq C2 exon
GGTCTTACTGGGCCCATCGGGCCCCCAGGACCAGCAGGTGCCAATGGCGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000058560-'44-36,'44-35,45-36=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(30.2=80.6),PF0139113=Collagen=PU(43.0=94.4)
A:
PF0139113=Collagen=FE(21.5=100),PF0139113=Collagen=PU(18.3=94.4)
C2:
PF0139113=Collagen=FE(21.5=100),PF0139113=Collagen=FE(18.3=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:
CCAGATGGTCCCCCTGGG
R:
CATTGGCACCTGCTGGTCC
Band lengths:
142-196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]