DreEX0033168 @ danRer10
Exon Skipping
Gene
ENSDARG00000006526 | fn1b
Description
fibronectin 1b [Source:ZFIN;Acc:ZDB-GENE-030131-6545]
Coordinates
chr1:4814629-4818105:-
Coord C1 exon
chr1:4818016-4818105
Coord A exon
chr1:4816355-4816621
Coord C2 exon
chr1:4814629-4814816
Length
267 bp
Sequences
Splice sites
3' ss Seq
CATTCCCCTCATCCACACAGAAC
3' ss Score
6.99
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
Exon sequences
Seq C1 exon
ACTTGCTGCCAAATACAGAGTATCTGGTGAAAGTGGTGTGCGTCTATGATGACAGAGAGAGTGAACCTGTAACTGGTATCCAGAAAACAA
Seq A exon
AACTGGACTCCCCAACAAATCTGGACTTCTCTGACGTCTCCACCAATTCATTCACCGTGCACTGGATGGCCCCACGTGCAGTCATTACCGGTTACCGCCTACGTTATCAACCAACAAGTGGTGGGCGTGCTAAAGATGAGAGACTTCCACCAACAAGAAACTACTTCACGCTGGTGAACCTGGCCCCTGAGACAGAGTATACCGTTCATATTTATGCCGTCAGCAGCAATATAGAAAGTCTACCACTTACTGGAACACAAGCAACTG
Seq C2 exon
CTGTTCCTGCTCCCACCGATATTCAGTTCTTCGACATCAGTCCGTCTTCCTTTATTGTGTCATGGCAAGCACCCAATTCCAGACTTTCTGGCTATCGTGTGGTGGTCACCCCAAGGAATCAGCTTGCCACATCCAAAGAAATGACCATTTCACCAGACTCTACGCAAGTCTTAGTGCCTGGGCTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000006526_MULTIEX1-4/9=3-C2
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.226 A=0.244 C2=0.111
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(26.2=71.0)
A:
PF0004116=fn3=WD(100=88.9)
C2:
PF0004116=fn3=PU(74.1=95.2)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTTGCTGCCAAATACAGAGT
R:
CACAAGCCCAGGCACTAAGAC
Band lengths:
278-545
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]