RnoEX0048466 @ rn6
Exon Skipping
Gene
ENSRNOG00000003349 | LOC103693323
Description
collagen alpha-1(XXIII) chain [Source:RGD Symbol;Acc:9310824]
Coordinates
chr10:37014940-37016666:+
Coord C1 exon
chr10:37014940-37015017
Coord A exon
chr10:37015537-37015560
Coord C2 exon
chr10:37016613-37016666
Length
24 bp
Sequences
Splice sites
3' ss Seq
ATCCCAGTTACCTCCCACAGGCC
3' ss Score
6.59
5' ss Seq
ATGGTAACT
5' ss Score
6.06
Exon sequences
Seq C1 exon
GGTCCCCCAGGCCTCAAGGGAGAACAAGGTGACACGGTGGTAATCGACTATGATGGCAGGATCTTAGATGCCCTGAAG
Seq A exon
GCCTCCGGGAAGTACAAGTTGATG
Seq C2 exon
GGTCCTCCCGGACCACAGGGAGCTCCTGGGCCACCAGGGATCCCTGGAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003349_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.974 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(20.0=46.2),PF0139113=Collagen=PU(5.1=11.5)
A:
PF0139113=Collagen=PU(11.1=87.5)
C2:
PF0139113=Collagen=FE(28.8=100)
Main Inclusion Isoform:
ENSRNOT00000064078fB7605
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGACACGGTGGTAATCGAC
R:
CTTGGCTCCAGGGATCCC
Band lengths:
105-129
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]