BtaEX6011346 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000008300 | FN1
Description
Bos taurus fibronectin 1 (FN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001163778]
Coordinates
chr2:103902808-103904526:-
Coord C1 exon
chr2:103904437-103904526
Coord A exon
chr2:103903631-103903900
Coord C2 exon
chr2:103902808-103902924
Length
270 bp
Sequences
Splice sites
3' ss Seq
CCCCTGGATGGGAAAAACAGCTC
3' ss Score
-3.33
5' ss Seq
CAGGTAACT
5' ss Score
8.63
Exon sequences
Seq C1 exon
ATCTCCTGCCCGGCACCGAGTATTTAGTCAGCGTCTCCAGTGTTTACGAGCAGCATGAGAGCATACCTCTTAGAGGAAGACAGAAAACCG
Seq A exon
CTCTTGACTCCCCAAGTGGCATTGACTTTTCTGATATCACTGCCAACTCTTTCACTGTCCATTGGATTGCTCCACGAGCCACCATCACTGGCTACAGGATCCGCCATCATCCTGAAAACATGGGTGGAAGACCTCGGGAAGATCGAGTGCCCCCCTCTCGGAATTCCATCACCCTCACCAACCTGAACCCAGGCACAGAATATGTGGTCAGCATTGTTGCTCTTAATAGCAAAGAGGAAAGTCTGCCCTTGGTTGGCCAACAATCAACAG
Seq C2 exon
TTTCTGATGTTCCAAGGGACCTGGAAGTCATTGCTGCAACCCCCACTAGCCTGCTGATCAGCTGGGATGCGCCTGCCGTCACAGTGAGATACTACAGGATCACCTATGGAGAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008300-'33-34,'33-33,34-34=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.280 A=0.396 C2=0.075
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(25.9=67.7)
A:
PF0004116=fn3=WD(100=89.0)
C2:
PF0004116=fn3=PU(45.1=92.5)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCGGCACCGAGTATTTAGTC
R:
TGTTTCTCCATAGGTGATCCTGT
Band lengths:
198-468
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]