RnoINT0062946 @ rn6
Intron Retention
Gene
ENSRNOG00000043370 | Fubp1
Description
far upstream element binding protein 1 [Source:RGD Symbol;Acc:1591892]
Coordinates
chr2:257432983-257433283:+
Coord C1 exon
chr2:257432983-257433054
Coord A exon
chr2:257433055-257433225
Coord C2 exon
chr2:257433226-257433283
Length
171 bp
Sequences
Splice sites
5' ss Seq
CTGGTAACA
5' ss Score
4.6
3' ss Seq
TTTTTTTTATTTAATTGTAGATA
3' ss Score
9.2
Exon sequences
Seq C1 exon
TAATTGGCAGAGGAGGTGAACAGATCTCACGCATACAGCAGGAATCTGGATGCAAAATACAGATAGCTCCTG
Seq A exon
GTAACATTTTTTTTTTTTAATGGGAATTTCTTGTTATTTTGTCAGGCCCTTGCTGGGATGTTTTGGGGGTGGGGGCTAGGAAATTTGAGTGTTTAAGTTTCAAAAGATCTGGTATTTTTAATCTTTTTGGGTTTTTTGTTTTCACCTAAATTTTTTTTTATTTAATTGTAG
Seq C2 exon
ATAGTGGTGGCCTTCCAGAAAGGTCTTGTATGCTAACGGGAACGCCTGAATCTGTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000043370:ENSRNOT00000066199:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.613 A=NA C2=0.800
Domain overlap (PFAM):
C1:
PF0001324=KH_1=FE(38.1=100)
A:
NA
C2:
PF0001324=KH_1=FE(30.2=100)
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:
TAATTGGCAGAGGAGGTGAACA
R:
TGAACAGATTCAGGCGTTCCC
Band lengths:
130-301
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]