GgaEX1066055 @ galGal4
Exon Skipping
Gene
ENSGALG00000003578 | fn1
Description
fibronectin precursor [Source:RefSeq peptide;Acc:NP_001185641]
Coordinates
chr7:4370064-4373150:-
Coord C1 exon
chr7:4372974-4373150
Coord A exon
chr7:4372024-4372176
Coord C2 exon
chr7:4370064-4370192
Length
153 bp
Sequences
Splice sites
3' ss Seq
CTTACTTTCTTCCCAACCAGCCC
3' ss Score
7.89
5' ss Seq
GAGGTACTG
5' ss Score
7.67
Exon sequences
Seq C1 exon
TTTTGGTCCAGACACGTGGTGGCAATTCCAACGGTGCTCTGTGCCACTTCCCCTTCCTGTACAACAACCGCAACTATACTGACTGTACTTCTGAGGGACGGAGAGACAACATGAAGTGGTGTGGAACCACTGAGAACTATGATGCTGACCAGAAATTTGGCTTCTGCCCTATGGCTG
Seq A exon
CCCACGAGGAAATCTGCACCACCAATGATGGTATCATGTACCGTGTTGGGGACCAGTGGGATAAACAGCACGATATGGGCCACATGATGAGATGTACCTGCGTAGGAAATGGCCGTGGAGAGTGGACTTGCATTGCATACTCCCAGCTCAGAG
Seq C2 exon
ATCAGTGCATTGTGGATGGTATCACCTATGATGTGAACCAGACGTTCCACAAGCGTCATGATGAGGGGCACATGCTGAACTGCACGTGCTTTGGCCAAGGTCGTGGGAGATGGAAGTGCGATCCCGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003578-'11-11,'11-10,12-11
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0004014=fn2=WD(100=70.0)
A:
PF0003913=fn1=WD(100=75.0)
C2:
PF0003913=fn1=WD(100=86.4)
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:
CCCCTTCCTGTACAACAACCG
R:
ACTTCCATCTCCCACGACCTT
Band lengths:
245-398
Functional annotations
There are 5 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: ELMI002208; 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: ELMI002208; ELM sequence: NGR; Overlap: FULL
PMID: 18480047
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: nuclear magnetic resonance. ELM ID: ELMI002208; ELM sequence: NGR; Overlap: FULL
PMID: 17591922
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: nuclear magnetic resonance, sequence based prediction. ELM ID: ELMI002211; ELM sequence: NGR; Overlap: FULL
PMID: 18480047
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: nuclear magnetic resonance. ELM ID: ELMI002211; ELM sequence: NGR; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]