RnoEX6040258 @ rn6
Exon Skipping
Gene
ENSRNOG00000014288 | Fn1
Description
fibronectin 1 [Source:RGD Symbol;Acc:2624]
Coordinates
chr9:78922824-78925771:-
Coord C1 exon
chr9:78925682-78925771
Coord A exon
chr9:78924276-78924545
Coord C2 exon
chr9:78922824-78922940
Length
270 bp
Sequences
Splice sites
3' ss Seq
TCCTTGGGTGGGAAAAACAGGTC
3' ss Score
0.03
5' ss Seq
CGGGTAATG
5' ss Score
6.86
Exon sequences
Seq C1 exon
ATCTCCTGCCTGGGACTGAGTACTTAGTCAGTGTCTCCAGCGTGTACGAACAGCATGAGAGCATCCCTCTCAGAGGAAGACAGAAAACAG
Seq A exon
GTCTGGACTCCCCAACTGGTTTTGATTCTTCTGATGTCACCGCCAACTCATTCACCGTCCACTGGGTGGCTCCTCGGGCCCCCATCACCGGCTACATCATCCGCCATCACGCCGAGCATTCTGCCGGAAGACCCAGGCAAGACCGAGTGCCGCCCTCAAGGAATTCTATCACCCTCACCAACCTTAATCCGGGCACGGAGTACATTGTCACCATCATTGCTGTTAATGGCAGAGAGGAGAGCCCCCCACTGATTGGCCAGCAATCCACGG
Seq C2 exon
TTTCCGATGTCCCGAGAGATCTGGAGGTCATCGCTTCCACCCCCACCAGCCTGCTCATCAGTTGGGAACCCCCCGCCGTCTCTGTGCGCTATTACAGAATCACCTATGGAGAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014288-'44-50,'44-49,45-50=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.355 A=0.538 C2=0.150
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(25.9=67.7)
A:
PF0004116=fn3=WD(100=89.0)
C2:
PF0004116=fn3=PU(45.1=92.5)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTGCCTGGGACTGAGTAC
R:
TGTCTCTCCATAGGTGATTCTGT
Band lengths:
204-474
Functional annotations
There are 2 annotated functions for this event
PMID: 1532572
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: affinity chromatography technology, coimmunoprecipitation, polyclonal antibody, western blot. ELM ID: ELMI002209; ELM sequence: NGR; Overlap: FULL
PMID: 1694173
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: affinity chromatography technology, coimmunoprecipitation, polyclonal antibody, western blot. ELM ID: ELMI002209; ELM sequence: NGR; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]