DreEX6035652 @ danRer10
Exon Skipping
Gene
ENSDARG00000019815 | fn1a
Description
fibronectin 1a [Source:ZFIN;Acc:ZDB-GENE-000426-1]
Coordinates
chr9:15396037-15400135:-
Coord C1 exon
chr9:15400046-15400135
Coord A exon
chr9:15397130-15397584
Coord C2 exon
chr9:15396037-15396175
Length
455 bp
Sequences
Splice sites
3' ss Seq
CATCCCAATTTTCCTCCTAGAAC
3' ss Score
8.04
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
Exon sequences
Seq C1 exon
GGTTGATACCAGGCACTGAGTACATTATCAAGATTGTTGCATTAAATGGCGCTCAGAGAAGCACGCCATTGATTGGAAAGGCAAGAACTC
Seq A exon
AACTGGAAATTGAGCAGCTTCCCCCTCAGCTACCTAATCCCAGCCGACCCCATCTCGAAGTCTTGGATGTGCCCGAGGACAATGACAACTTCAACAACCACGTACATGTGCTGGGGCCAAACAGACACAACACACTGGGGCAGCAGGGTCAACACATCTACACCGAATATCAGAGCTTCAACCTGGGCAACAACGGCCAGCAGCCTCATCATCCAAACCACGGCGAGCCGCTAGTCTACATCCCTCTGCCGGGAGCGGACGGCCAGAGAGTGCCTGTGGTGAAGGTCAACGAGGGTCAAGAAGCAGGTTTCCCCTTTGGCGGCCTTTTTAATGAGACAAACCTGCCCCAGGAATCTCAGACTCAGACTACAATTGTGTGGCAGCCTGTGCCACACACGTCTGAGTATGTGGTTTGGTGCGACCCCATTACTGAGATCAATGAGAAGAGCTTCCAG
Seq C2 exon
ATGCGTCTGCCTGGTACATCAACAAGTGCTACCCTGATTGGCCTTACCTCAGGTGCCTCCTATAATGTTCTTGTGGAGTCTGTTAATGGAGACCAAAAACAGAAAGTGCTGCAAGACGTTGTGACAGTAGGAAATAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019815-'47-49,'47-48,48-49=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.258 A=0.711 C2=0.000
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(27.2=71.0)
A:
PF0004116=fn3=PU(52.6=26.3)
C2:
PF0004116=fn3=PD(44.7=72.3)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCACTGAGTACATTATCAAGA
R:
CGCTATTTCCTACTGTCACAACGT
Band lengths:
219-674
Functional annotations
There are 1 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.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]