BtaEX6011348 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000008300 | FN1
Description
Bos taurus fibronectin 1 (FN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001163778]
Coordinates
chr2:103901010-103902924:-
Coord C1 exon
chr2:103902808-103902924
Coord A exon
chr2:103901692-103901856
Coord C2 exon
chr2:103901010-103901165
Length
165 bp
Sequences
Splice sites
3' ss Seq
ACTAACCCCGTTTCAAACAGGAG
3' ss Score
7.09
5' ss Seq
CAGGTACTT
5' ss Score
8.17
Exon sequences
Seq C1 exon
TTTCTGATGTTCCAAGGGACCTGGAAGTCATTGCTGCAACCCCCACTAGCCTGCTGATCAGCTGGGATGCGCCTGCCGTCACAGTGAGATACTACAGGATCACCTATGGAGAAACAG
Seq A exon
GAGGAAGTAGCCCTGTCCAGGAGTTCACCGTGCCTGGGAGCAAGTCTACAGCTACCATCAGTGGTCTTAAACCTGGAGTGGACTACACCATCACTGTCTATGCTGTCACCGGCCGTGGGGACAGCCCGGCAAGCAGCAAGCCCGTTTCCATCAATTACCGAACAG
Seq C2 exon
AAATTGACAAACCATCCCAGATGCAAGTGACTGATGTCCAAGACAACAGCATTAGTGTCAGGTGGCTGCCTTCAAGTTCCCCTGTTACTGGTTACAGAGTGACCACTGCTCCTAAAAATGGCCCAGGACCATCGAAAACGAAAACTGTAGGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008300-'35-36,'35-35,36-36=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.075 A=0.607 C2=0.679
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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTCCAAGGGACCTGGAAGT
R:
CGATGGTCCTGGGCCATTTTT
Band lengths:
244-409
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]