HsaEX6018371 @ hg19
Exon Skipping
Gene
ENSG00000115414 | FN1
Description
fibronectin 1 [Source:HGNC Symbol;Acc:3778]
Coordinates
chr2:216249583-216253024:-
Coord C1 exon
chr2:216252935-216253024
Coord A exon
chr2:216251412-216251681
Coord C2 exon
chr2:216249583-216249699
Length
270 bp
Sequences
Splice sites
3' ss Seq
CCCCCGGGTGGGAAAAACAGGTC
3' ss Score
0.46
5' ss Seq
CAGGTAACT
5' ss Score
8.63
Exon sequences
Seq C1 exon
ATCTCCTGCCTGGTACAGAATATGTAGTGAGTGTCTCCAGTGTCTACGAACAACATGAGAGCACACCTCTTAGAGGAAGACAGAAAACAG
Seq A exon
GTCTTGATTCCCCAACTGGCATTGACTTTTCTGATATTACTGCCAACTCTTTTACTGTGCACTGGATTGCTCCTCGAGCCACCATCACTGGCTACAGGATCCGCCATCATCCCGAGCACTTCAGTGGGAGACCTCGAGAAGATCGGGTGCCCCACTCTCGGAATTCCATCACCCTCACCAACCTCACTCCAGGCACAGAGTATGTGGTCAGCATCGTTGCTCTTAATGGCAGAGAGGAAAGTCCCTTATTGATTGGCCAACAATCAACAG
Seq C2 exon
TTTCTGATGTTCCGAGGGACCTGGAAGTTGTTGCTGCGACCCCCACCAGCCTACTGATCAGCTGGGATGCTCCTGCTGTCACAGTGAGATATTACAGGATCACTTACGGAGAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115414-'58-63,'58-60,60-63=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.419 A=0.395 C2=0.075
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(26.8=71.0)
A:
PF0004116=fn3=WD(100=89.0)
C2:
PF0004116=fn3=PU(45.1=92.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTACAGAATATGTAGTGAGTGTCT
R:
TGTCTCTCCGTAAGTGATCCTGT
Band lengths:
196-466
Functional annotations
There are 2 annotated functions for this event
PMID: 1532572
This event
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
This event
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]
SPECIAL DATASETS
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)