DreEX6035633 @ danRer10
Exon Skipping
Gene
ENSDARG00000019815 | fn1a
Description
fibronectin 1a [Source:ZFIN;Acc:ZDB-GENE-000426-1]
Coordinates
chr9:15444716-15446622:-
Coord C1 exon
chr9:15446425-15446622
Coord A exon
chr9:15446156-15446338
Coord C2 exon
chr9:15444716-15444892
Length
183 bp
Sequences
Splice sites
3' ss Seq
TCTTACTGTCTTTTGTGTAGAGA
3' ss Score
7.31
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
Exon sequences
Seq C1 exon
GTACTGGGTCTCGTGTTGTGACCAATGTCCAGCCAGCAGTGTACCACCCACAAGGGGTGCCTGAACACCCTGTGGAGGGATCCTGTCTGACTGAAGCAGGTGTTTCCTATGCTCCAGGCATGCGCTGGAGCAAGGCTCAAGGTAGCAAGCAGATGTTGTGTACCTGCTTAGGAAACGGTGTCAGCTGTGAAGAGTCAG
Seq A exon
AGAGTCAATCTCAGGTGTATGGCGGGACCTCAGGTGGCGAACCGTGTGCTTTCCCTTTTGTGTTCATGGGGAAAACGTTTTACTCCTGCACGTCTGAGGGACGCAATGATGGACAGCTTTGGTGCAGCACCTCATCTGACTTTGAGAAAGACTACAAGTATTCCTTCTGTACCAGCAACAATG
Seq C2 exon
TTGTGGTCACAACCAGAGGAGGAAACTCTAATGGTGCCCTGTGCCAGTTCCCTTTCCTCTACAATGGCCGTAACTACACTGACTGCACTGCTGATGGCAGAAGAGATGGCATGAAATGGTGCGGCACGACTTATAACTTTGACAAAGAGCAGCGCTTTGGCTTCTGTCCAATGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019815-'6-8,'6-7,7-8=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.119 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0003913=fn1=WD(100=52.2)
A:
PF0004014=fn2=WD(100=67.7)
C2:
PF0004014=fn2=WD(100=70.0)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGTTTCCTATGCTCCAGGC
R:
AGCGCTGCTCTTTGTCAAAGT
Band lengths:
256-439
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: ELMI002207; 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: ELMI002207; ELM sequence: NGR; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]