RnoEX6040259 @ rn6
Exon Skipping
Gene
ENSRNOG00000014288 | Fn1
Description
fibronectin 1 [Source:RGD Symbol;Acc:2624]
Coordinates
chr9:78920724-78922940:-
Coord C1 exon
chr9:78922824-78922940
Coord A exon
chr9:78921564-78921728
Coord C2 exon
chr9:78920724-78920879
Length
165 bp
Sequences
Splice sites
3' ss Seq
TACTAACTCCTTTTACACAGGAG
3' ss Score
5.12
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
Exon sequences
Seq C1 exon
TTTCCGATGTCCCGAGAGATCTGGAGGTCATCGCTTCCACCCCCACCAGCCTGCTCATCAGTTGGGAACCCCCCGCCGTCTCTGTGCGCTATTACAGAATCACCTATGGAGAGACAG
Seq A exon
GAGGAAATAGCCCTGTCCAGGAATTCACTGTGCCCGGAAGCAAGTCCACCGCCACCATCAACAACATTAAACCAGGAGCAGACTACACCATCACCCTGTATGCTGTCACTGGCCGTGGGGACAGTCCAGCCAGCAGCAAGCCAGTTTCCATCAATTATCAAACAG
Seq C2 exon
AAATTGACAAGCCATCCCAGATGCAGGTGACGGATGTCCAGGACAACAGCATCAGTGTCAGGTGGCTGCCTTCAACTTCTCCTGTGACAGGTTACAGAGTGACCACCGCTCCCAAAAATGGCCTAGGACCAACAAAATCTCAAACTGTCAGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014288-'47-54,'47-51,48-54=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.150 A=0.643 C2=0.679
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(45.1=92.5)
A:
PF0004116=fn3=PD(53.7=78.6)
C2:
PF0004116=fn3=PU(61.7=94.3)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCGATGTCCCGAGAGATCTG
R:
CCTAGGCCATTTTTGGGAGCG
Band lengths:
242-407
Functional annotations
There are 4 annotated functions for this event
PMID: 6325925
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: cross linking study, overlapping binding peptide, x-ray crystallography. ELM ID: ELMI000104; ELM sequence: RGD; Overlap: FULL
PMID: 19738201
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: cross linking study, overlapping binding peptide, x-ray crystallography. ELM ID: ELMI000104; ELM sequence: RGD; Overlap: FULL
PMID: 22451694
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: cross linking study, overlapping binding peptide, x-ray crystallography. ELM ID: ELMI000104; ELM sequence: RGD; Overlap: FULL
PMID: 9533887
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: structure based prediction. ELM ID: ELMI000105; ELM sequence: RGD; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]