GgaEX1066078 @ galGal4
Exon Skipping
Gene
ENSGALG00000003578 | fn1
Description
fibronectin precursor [Source:RefSeq peptide;Acc:NP_001185641]
Coordinates
chr7:4347861-4349407:-
Coord C1 exon
chr7:4349291-4349407
Coord A exon
chr7:4348697-4348861
Coord C2 exon
chr7:4347861-4348016
Length
165 bp
Sequences
Splice sites
3' ss Seq
TTCCACCCCACCCTCTTCAGGTG
3' ss Score
9.13
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
Exon sequences
Seq C1 exon
TGTCAGATGTTCCAAGGGACCTGGAAGTCAACCCCACCAGCCCAACCAGCCTCGAGATCTCTTGGGATGCTCCTGCAGTGACAGTCAGATACTACCGGATCACTTATGGTGAAACAG
Seq A exon
GTGGAAGTAGCCCTGTGCAGGAGTTTACAGTGCCTGGCACCATGTCTCGTGCTACCATCACTGGCCTCAAACCCGGTGTGGACTACACCATCACTGTGTATGCTGTAACTGGTCGTGGAGACAGCCCTGCCAGCAGCAAGCCAGTTACTGTCACCTACAAAACAG
Seq C2 exon
AAATAGACACGCCATCCCAGATGCAAGTTACCGATGTCCAGGACAACAGCATCAGCATCAGATGGCTCCCTTCATCATCCCCAGTCACAGGGTATCGGGTGACAGCTGTCCCCAAGAAAGGACATGGACCCACAAAAACTAAGAATGTCCCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003578_CASSETTE4
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.425 A=0.607 C2=0.623
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(45.1=92.5)
A:
PF0004116=fn3=PD(53.7=78.6)
C2:
PF0004116=fn3=PU(61.7=94.3)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGATGTTCCAAGGGACCTGGA
R:
GGTCCATGTCCTTTCTTGGGG
Band lengths:
243-408
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]