RnoINT0062937 @ rn6
Intron Retention
Gene
ENSRNOG00000043370 | Fubp1
Description
far upstream element binding protein 1 [Source:RGD Symbol;Acc:1591892]
Coordinates
chr2:257440117-257440628:+
Coord C1 exon
chr2:257440117-257440268
Coord A exon
chr2:257440269-257440548
Coord C2 exon
chr2:257440549-257440628
Length
280 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
TTTGTTTCCCCATCCCACAGTGG
3' ss Score
9.07
Exon sequences
Seq C1 exon
GGCCCAGTAAATCCTTTAGGGCCACCAGTACCCCATGGACCTCATGGGGTTCCAGGTCCTCATGGGCCTCCTGGACCTCCAGGGCCTGGAACTCCAATGGGGCCATACAACCCTGCACCTTATAATCCAGGACCTCCTGGCCCAGCTCCTCA
Seq A exon
GTAAGTACTACATTTGGGTGGTTCTGGGCTTTTCCTAAAGACCCTAGGTTTGGGGGCTGGAGAGATGGTTCAGCATAGGGACCTGGGTTCACTTCCCAGCACCACATGGTGGTTTGCATCGTTCTTAACGGGTTCTATGATGTCTTGATGCCAACACTAGGCATACGTAGCTGCGTGTATATATATGCAATACATGCAGAGGTAAAAATCTATACATAAAATAAGTAAAACTGGCATTTTTTTAAAAGGGTATTTGTGGTTTTGTTTCCCCATCCCACAG
Seq C2 exon
TGGTCCTCCAGCCCCATATGCTCCCCAGGGATGGGGAAATGCATATCCACATTGGCAGCAGCAGGCTCCTCCTGACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000043370:ENSRNOT00000066199:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GCCCAGTAAATCCTTTAGGGCC
R:
CTGCTGCTGCCAATGTGGATA
Band lengths:
215-495
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]