RnoALTA0015646-5/5 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000014288 | Fn1
Description
fibronectin 1 [Source:RGD Symbol;Acc:2624]
Coordinates
chr9:78911609-78912778:-
Coord C1 exon
chr9:78912689-78912778
Coord A exon
chr9:78911716-78912075
Coord C2 exon
chr9:78911609-78911715
Length
360 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
CTAACCTCTCTCTTGGCTAGATG
3' ss Score
8.02
Exon sequences
Seq C1 exon
GTCTGGAGCCAGGAACCGAGTACACCATCTATGTCATCGCACTGAAGAACAATCAGAAGAGTGAGCCCCTGATTGGGAGGAAAAAGACAG
Seq A exon
ATGAGCTTCCCCAACTGGTTACCCTTCCACACCCCAATCTTCATGGACCAGAGATCTTGGATGTTCCCTCCACAGTTCAAAAGACCCCCTTCGTCACCAACCCTGGGTATGACACCGAAAATGGTATTCAGCTTCCTGGCACATCCCACCAACAACCCAGTGTTGGGCAACAAATGATCTTTGAGGAACATGGCTTTAGGCGAACCACGCCACCCACTGCGGCCACCCCCGTCAGGCTTAGGCCAAGACCATACCTGCCGAATGTAGATGAGGAGGTCCAAATCGGTCATGTTCCCAGGGGAGACGTAGACTACCACCTCTATCCTCATGTTCCGGGGCTCAATCCAAATGCCTCTACAG
Seq C2 exon
GACAAGAAGCTCTCTCTCAGACAACCATCTCTTGGACGCCATTCCAGGAGAGTTCTGAGTACATCATTTCATGCCAACCTGTTGGCACTGACGAAGAGCCCTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014288-60-75,60-74,60-73,60-72,60-71-5/5
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.387 A=NA C2=0.840
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(27.2=71.0)
A:
NA
C2:
PF0004116=fn3=PU(51.4=23.7)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGAGCCAGGAACCGAGTA
R:
GTAAGGGCTCTTCGTCAGTGC
Band lengths:
193-553
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]