DreEX0033170 @ danRer10
Exon Skipping
Gene
ENSDARG00000006526 | fn1b
Description
fibronectin 1b [Source:ZFIN;Acc:ZDB-GENE-030131-6545]
Coordinates
chr1:4814629-4821675:-
Coord C1 exon
chr1:4821484-4821675
Coord A exon
chr1:4815905-4816078
Coord C2 exon
chr1:4814629-4814816
Length
174 bp
Sequences
Splice sites
3' ss Seq
TAGACTTTACTGACTCCCAGGTG
3' ss Score
5.04
5' ss Seq
GAAGTAAGC
5' ss Score
6.95
Exon sequences
Seq C1 exon
ATATCACTGGCTACAGAGTGACAGGCACACCGATCAATGGGCAGCGTGGAGTTAGTCTAGAGGAGTCTGTACGAGGGGATGAAACCTCATGCATTCTGGAGAACCTGAGTCCTGGTGTTGATTACAATATCAGTGTCTACACTGTAAAAAACCACCTGGAGAGTGAGCCAATCTCGACTTCTGTCACGCAAG
Seq A exon
GTGAAAGAGATGCACCGAGAGAGTTCACTGTTCCAGGAACACAGTCTTCTGCCACCATCCAGGGTCTGCGGCCTGACACAGATTACACCATTACGCTGTATGCTGTGACAGGAAGAGGGGACAGCCCAGCATCCAGCACACCAGTTATCATCACACACAGGACTGCGGGTGGAA
Seq C2 exon
CTGTTCCTGCTCCCACCGATATTCAGTTCTTCGACATCAGTCCGTCTTCCTTTATTGTGTCATGGCAAGCACCCAATTCCAGACTTTCTGGCTATCGTGTGGTGGTCACCCCAAGGAATCAGCTTGCCACATCCAAAGAAATGACCATTTCACCAGACTCTACGCAAGTCTTAGTGCCTGGGCTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000006526_MULTIEX1-6/9=C1-C2
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.369 A=0.695 C2=0.111
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(67.1=87.7)
A:
PF0004116=fn3=PD(53.7=74.6)
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:
GTGACAGGCACACCGATCAAT
R:
AATTGGGTGCTTGCCATGACA
Band lengths:
253-427
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]