BtaEX6011328 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000008300 | FN1
Description
Bos taurus fibronectin 1 (FN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001163778]
Coordinates
chr2:103937627-103939670:-
Coord C1 exon
chr2:103939479-103939670
Coord A exon
chr2:103938423-103938602
Coord C2 exon
chr2:103937627-103937803
Length
180 bp
Sequences
Splice sites
3' ss Seq
CCTTTTGGTTATGCTTGTAGCTG
3' ss Score
5.9
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
Exon sequences
Seq C1 exon
GATCTGGCTCCTTCACTGATGTCCGAACGGCCATCTACCAGCCCCAGCCTCATCCTCAGCCGCCTCCGTATGGTCACTGTGTCACAGACAGCGGTGTGGTTTACTCTGTGGGGATGCAGTGGCTGAAGACACAAGGGAATAAGCAAATGCTTTGCACTTGCCTGGGCAACGGAGTCAGCTGCCAAGAGACAG
Seq A exon
CTGTAACCCAGACTTATGGTGGCAATTCCAACGGAGAGCCGTGCGTCCTCCCGTTCACCTACAACGGTAAGACTTTCTACTCCTGCACGACCGAAGGGCGGCAGGACGGACACCTCTGGTGCAGCACAACTTCCAATTATGAGCAAGACCAGAAATATTCTTTCTGTACAGACCATACTG
Seq C2 exon
TTTTGGTTCAGACTCGAGGTGGAAATTCCAATGGTGCCTTGTGCCACTTTCCTTTCCTGTACAACAACCACAACTACACGGACTGTACTTCTGAGGGCAGGAGGGACAACATGAAATGGTGTGGGACCACGCAGAACTATGACGCTGACCAGAAGTTTGGATTCTGCCCCATGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008300-'6-10,'6-9,8-10=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.154 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0003913=fn1=WD(100=53.8)
A:
PF0004014=fn2=WD(100=68.9)
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:
CGGTGTGGTTTACTCTGTGGG
R:
CATAGTTCTGCGTGGTCCCAC
Band lengths:
242-422
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]