RnoEX0036488 @ rn6
Exon Skipping
Gene
ENSRNOG00000014288 | Fn1
Description
fibronectin 1 [Source:RGD Symbol;Acc:2624]
Coordinates
chr9:78910594-78912778:-
Coord C1 exon
chr9:78912689-78912778
Coord A exon
chr9:78911609-78911715
Coord C2 exon
chr9:78910594-78910732
Length
107 bp
Sequences
Splice sites
3' ss Seq
CAATCCAAATGCCTCTACAGGAC
3' ss Score
5.77
5' ss Seq
CAGGTATAT
5' ss Score
7.88
Exon sequences
Seq C1 exon
GTCTGGAGCCAGGAACCGAGTACACCATCTATGTCATCGCACTGAAGAACAATCAGAAGAGTGAGCCCCTGATTGGGAGGAAAAAGACAG
Seq A exon
GACAAGAAGCTCTCTCTCAGACAACCATCTCTTGGACGCCATTCCAGGAGAGTTCTGAGTACATCATTTCATGCCAACCTGTTGGCACTGACGAAGAGCCCTTACAG
Seq C2 exon
TTCCAAGTTCCTGGAACTTCTACCAGTGCGACTCTGACTGGCCTTACCAGAGGGGTCACCTACAACATCATAGTGGAGGCCCTGCACAACCAGAGGAGGCACAAGGTCCGAGAAGAGGTTGTTACTGTAGGCAACACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014288-'60-76,'60-75,61-76
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.387 A=0.840 C2=0.404
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(27.2=71.0)
A:
PF0004116=fn3=PU(51.4=23.7)
C2:
PF0004116=fn3=PD(45.8=70.2)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTGGAGCCAGGAACCGAG
R:
TGTTGCCTACAGTAACAACCTCT
Band lengths:
226-333
Functional annotations
There are 2 annotated functions for this event
PMID: 11246004
The alternatively spliced IIICS segment possesses the major alpha4beta1 integrin-binding sites. The exon is associated to HsaALTA0003426 and other complex AS events.
PMID: 11246004
The alternatively spliced IIICS segment possesses the major alpha4beta1 integrin-binding sites. The exon is associated to HsaALTA0003426 and other complex AS events.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]