BtaEX6011357 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000008300 | FN1
Description
Bos taurus fibronectin 1 (FN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001163778]
Coordinates
chr2:103890735-103893480:-
Coord C1 exon
chr2:103893391-103893480
Coord A exon
chr2:103891970-103892436
Coord C2 exon
chr2:103890735-103890873
Length
467 bp
Sequences
Splice sites
3' ss Seq
CTCTAACCTCTCTTGGCTAGATG
3' ss Score
5.45
5' ss Seq
CAGGTAACT
5' ss Score
8.63
Exon sequences
Seq C1 exon
GTCTGGAACCAGGAACAGAGTACACAATCCAAGTCATTGCCCTCAAGAACAATCAGAAGAGTGAGCCTTTGATTGGGAGGAAAAAGACAG
Seq A exon
ATGAGCTCCCCCAGCTGGTAACCCTTCCACACCCCAATCTTCATGGACCAGAGATCTTGGATGTTCCCTCCACAGTTCAAAAGACCCCTTTCATCACCAACCCTGGGTATGACACTGGAAACGGTATTCAGCTTCCCGGCACTTCTGGTCAGCAGCCCAGTCTTGGGCAACAAATGATCTTTGAGGAGCATGGTTTTAGGCGAACCACACCGCCCACCACGGCCACCCCCGTAAGGCATAGGCCAAGACCGTATCCGCCGAATGTAAATGAGGAGATCCAAATTGGTCATGTCCCCAGGGGAGACGTAGACCATCATCTCTACCCTCACGTTGTGGGACTCAATCCAAATGCTTCTACAGGCCAAGAAGCTCTCTCTCAGACAACCATCTCATGGACCCCATTCCAGGAAAGCTCTGAGTATATCATTTCATGTCATCCAGTTGGCATTGATGAAGAACCCTTACAG
Seq C2 exon
TTCCGAGTTCCTGGAACCTCTGCTAGTGCCACCTTGACGGGCCTCACCAGAGGGGCCACCTACAACATCATAGTGGAGGCAGTAAAAGACCAGCAGAGGCAGAAGGTTCGCGAGGAGGTGGTTACCGTGGGCAATTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008300-'45-51,'45-46,48-51=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.527 A=0.797 C2=0.298
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(27.2=71.0)
A:
PF0004116=fn3=PU(50.0=23.1)
C2:
PF0004116=fn3=PD(47.2=72.3)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTGGAACCAGGAACAGAGT
R:
AGAATTGCCCACGGTAACCAC
Band lengths:
228-695
Functional annotations
There are 2 annotated functions for this event
PMID: 11246004
The alternatively spliced IIICS segment possesses the major alpha4beta1 integrin-binding sites. The exon is associated to HsaALTA0003426 and other complex AS events.
PMID: 11246004
The alternatively spliced IIICS segment possesses the major alpha4beta1 integrin-binding sites. The exon is associated to HsaALTA0003426 and other complex AS events.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]