RnoINT0061809 @ rn6
Intron Retention
Gene
ENSRNOG00000014288 | Fn1
Description
fibronectin 1 [Source:RGD Symbol;Acc:2624]
Coordinates
chr9:78957883-78958803:-
Coord C1 exon
chr9:78958612-78958803
Coord A exon
chr9:78958063-78958611
Coord C2 exon
chr9:78957883-78958062
Length
549 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
GATCTTGGTTATGCTCGTAGCTG
3' ss Score
3.56
Exon sequences
Seq C1 exon
GATCTGGCTCCTTCACAGATGTCCGAACAGCTATTTACCAACCCCAGACCCACCCCCAGCCCGCACCGTACGGCCACTGTGTCACAGACAGCGGTGTGGTCTACTCTGTGGGAATGCAGTGGCTGAAGTCTCAAGGAGACAAGCAGATGCTGTGCACTTGCCTGGGCAATGGCGTCAGCTGCCAGGAGACAG
Seq A exon
GTAGGCGCTCTACAGCAACACCAGAGGACCGATATTTAGTGTCTGCAATAGCTTATATTATTTATTCGTAAAACAATAAGCCCAGAAAAGTCTCTAATCCTGTGATAAAGATCACAGTGGTTGATTTTCTTTTTTTCTCAAATAGCCAATAAACTGTACTCTTGAGTTCAATTTGGAATTATAGATGTCTTTCACCAGCACACGGCCTCTTCTGTGTCAAGACCTCTCTCTTTCAAAATTGTTTTTTCTAGAGTAGCCTTATAGACTGTTTCTTCTGATGGGACTGTAACCATGTATCCCCATCTTTGAGTCATAATAACTTGTATCAATAAAGGATTACAAATGGGGAAACTGAGTCACTGGGTAGCAGAAGTGTCTCTGAGTGACATTAACAGAGGAACTCTGGCTCACCTTAACCAGCTGACTTGACTTTTCGTCTTGCCCTGTTAGTCGCACAGTCTCTATTTAAATTAGAAATTTGCCACCAGCGGGGTCAGGGGTGAGGGTAGGAAACAACGTGGCTGACCGAGATCTTGGTTATGCTCGTAG
Seq C2 exon
CTGTGACCCAGACTTACGGTGGCAACTCAAACGGGGAGCCCTGTGTTCTCCCGTTCACCTACAACGGTAGGACCTTCTACTCCTGCACCACCGAAGGGCGGCAAGACGGACATCTGTGGTGTAGCACAACTTCAAATTATGAACAAGACCAGAAGTATTCTTTCTGCACAGACCACGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014288:ENSRNOT00000019772:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0003913=fn1=WD(100=53.8)
A:
NA
C2:
PF0004014=fn2=WD(100=68.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCTATTTACCAACCCCAGACC
R:
GCGTGGTCTGTGCAGAAAGAA
Band lengths:
343-892
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]