MmuEX6025166 @ mm10
Exon Skipping
Gene
ENSMUSG00000026193 | Fn1
Description
fibronectin 1 [Source:MGI Symbol;Acc:MGI:95566]
Coordinates
chr1:71607904-71611018:-
Coord C1 exon
chr1:71610929-71611018
Coord A exon
chr1:71609413-71609682
Coord C2 exon
chr1:71607904-71608020
Length
270 bp
Sequences
Splice sites
3' ss Seq
TCCTTGGGTGGGAAAAACAGGTC
3' ss Score
0.03
5' ss Seq
CAGGTAATT
5' ss Score
8.55
Exon sequences
Seq C1 exon
ATCTCCTGCCTGGGACAGAATACTTAGTCAGTGTCTCCAGTGTCTACGAACAACATGAGAGCATCCCTCTCCGGGGAAGGCAGAAAACAG
Seq A exon
GTCTCGATTCCCCAACTGGTTTTGATTCTTCTGATATCACCGCCAACTCATTCACTGTCCACTGGGTGGCTCCTCGGGCCCCCATCACCGGCTACATCATCCGCCATCACGCCGAGCATTCTGTCGGAAGACCCAGGCAGGATCGAGTGCCGCCCTCGCGGAATTCCATCACCCTCACCAACCTTAATCCGGGCACCGAGTACGTTGTCAGCATCATTGCTGTTAATGGCAGAGAGGAGAGCCCGCCACTGATTGGCCAGCAAGCCACAG
Seq C2 exon
TTTCTGATATTCCGAGAGATCTGGAGGTCATTGCCTCCACCCCCACCAGCCTGCTCATCAGTTGGGAACCCCCTGCCGTCTCTGTGCGCTATTACAGAATCACCTACGGAGAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026193-'51-56,'51-52,53-56
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.323 A=0.440 C2=0.050
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 Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGACAGAATACTTAGTCAGTGTCT
R:
CGTAGGTGATTCTGTAATAGCGCA
Band lengths:
188-458
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]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types