RnoINT0062958 @ rn6
Intron Retention
Gene
ENSRNOG00000009139 | Fubp3
Description
far upstream element binding protein 3 [Source:RGD Symbol;Acc:1307004]
Coordinates
chr3:10223307-10224247:-
Coord C1 exon
chr3:10224176-10224247
Coord A exon
chr3:10223435-10224175
Coord C2 exon
chr3:10223307-10223434
Length
741 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
GTCTGTTGTTTGTCCTCCAGGTC
3' ss Score
11.27
Exon sequences
Seq C1 exon
GCCAGCAGAGCCAGCCACAGAACAGCCAGCCCGACTACAGCAAGGCCTGGGAAGACTATTACAAAAAACAGG
Seq A exon
GTGAGTGCAGCCATCGCACTGTCCATGTAGAGTCACCTGGTTTACTTTACACCCTCTCTGGGTCTGTGCCTAGGTGCCCGCCTTGTCTCTCCCCTGCGTCCTGTCAGAGGAAGCCAAATGTAGCAGTGCCCGCTAGGTGTGTTGTCTGAGTCTCTGGGGGCCATGTCAGGGCACACCAGAGATCACAGTGCAGATTGGGGCTACCACTTCACTGGTTGTGTTACCTGTCTTTCCTTAGAGTTCATTTCTCTTTATAATACCAGGAACCAAGTCAGACTTAAGACTGATTTTCATGCCAACACAAAAATGCCCCCAGGCTAATTGTCATTAGCACAGGGCCTGAGCATGTTTAGGTCTAGTGTAGGGTTCTCTGGCAACATCTCACCTAGAACCACCATTTGCTGATCAGAAGGCCCAGGTTGAAGCTCCTTGGCTTTGGAGCAGGATCACCTGTGGGTCAAGAGCTGCTCTGGTGACTTGATGGGTAGGTGTCGCGTGGCCTCAGCACTGGGCTTGGGGCCTATTTAACACCAACCCTCCCCACTGAGTACTGCACTGCACCGTCTCTACCCTCGCTGCCTGTGCTTATTCTTTGGCACCCAGAGTTGCTGACAGGCAGGCAGGGCTCTGTAGTCCTATAGAAGTGGACCCTCTAGGTGGGCTTTGGCAGGGGCTGGTAAGGCCTGAGAAAGTCTTCCACACCCTCCCTTCCTTAACTCTTGTCTGTTGTTTGTCCTCCAG
Seq C2 exon
GTCACACCACCAGTGCTGCCCCACAGGCCAGCTCCCCCCCAGACTACACGATGGCCTGGGCCGAGTACTACAGGCAGCAGGCCGCCTTCTATGGGCAGACTTTAGGGCAGGCTCAGGCCCACAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009139:ENSRNOT00000021871:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.893 A=NA C2=0.651
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PU(66.7=88.0)
A:
NA
C2:
PF090055=DUF1897=PD(30.3=23.3),PF090055=DUF1897=WD(100=74.4)
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:
CAGAGCCAGCCACAGAACAG
R:
CCTGAGCCTGCCCTAAAGTCT
Band lengths:
184-925
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]