RnoINT0062951 @ rn6
Intron Retention
Gene
ENSRNOG00000009139 | Fubp3
Description
far upstream element binding protein 3 [Source:RGD Symbol;Acc:1307004]
Coordinates
chr3:10233735-10234345:-
Coord C1 exon
chr3:10234243-10234345
Coord A exon
chr3:10233836-10234242
Coord C2 exon
chr3:10233735-10233835
Length
407 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
TGTCTCATCTGATTCCACAGACG
3' ss Score
9.15
Exon sequences
Seq C1 exon
GTGTCTGTGCCTAGGTTTGTTGTTGGGATTGTCATAGGAAGAAACGGAGAAATGATTAAGAAGATCCAGAATGATGCTGGTGTGAGGATCCAGTTCAAACCAG
Seq A exon
GTTGGTGTAGACCTAGACTGGGCTGTGTTAACCATGTGTGCATTTTCTCCTTCTCTTTAGCAATCTCTGTTTGCTCCCCTGGTCATTCAGTTTGTAATTTTGCTAAGATTTCTTTACAAAATACCCCATTTAGACTTTTCTTTTATCAGGCAATTTTCTATCACAAAGAAAGGCAAACATCTTTCATGGAAGGCAAAGATGGCTGTTGCTTCATTGGCCTTGAACTCAGTGTTGTCCTCGTCAGCCCTCGTGCTGGGTCATCTGTACATGACAGTGGTTGGGCATTATCCTGAAGCATGTGAAAAACACTCAGTCACAGTCCTCATCACACTGAGAGCTTAGACTGAAACTCTCTTTGCTCCTTTGATCTTGGACTTGTCTTTACCCTGTCTCATCTGATTCCACAG
Seq C2 exon
ACGACGGGATTAGTCCAGAAAGAGCAGCACAGGTCATGGGCCCTCCAGATCGGTGTCAGCATGCAGCACGCATCATCAATGAGCTCATCCTCACGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009139:ENSRNOT00000021871:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.181 A=NA C2=0.529
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PU(56.7=97.1)
A:
NA
C2:
PF0001324=KH_1=PD(39.7=73.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTCTGTGCCTAGGTTTGTTGT
R:
CGTGAGGATGAGCTCATTGATGA
Band lengths:
198-605
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]