RnoINT0062933 @ rn6
Intron Retention
Gene
ENSRNOG00000043370 | Fubp1
Description
far upstream element binding protein 1 [Source:RGD Symbol;Acc:1591892]
Coordinates
chr2:257435672-257435978:+
Coord C1 exon
chr2:257435672-257435774
Coord A exon
chr2:257435775-257435877
Coord C2 exon
chr2:257435878-257435978
Length
103 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TATTTTGTTATTTGTTTTAGATG
3' ss Score
9.35
Exon sequences
Seq C1 exon
GTCCCAATTCCAAGATTTGCTGTTGGCATTGTAATAGGAAGAAATGGAGAAATGATTAAAAAAATACAAAATGATGCTGGTGTTCGAATTCAGTTTAAGCCAG
Seq A exon
GTAAGCTTAAGGTATATTTAATGTCTAAGGATTGATAGCTTTTCATTTGACACTCATAATTGGTTTGTCACAATTTATTGGGGTATTTTGTTATTTGTTTTAG
Seq C2 exon
ATGATGGAACAACACCTGATAGAATAGCACAGATAACAGGACCTCCAGACAGATGTCAGCATGCTGCAGAAATTATCACAGACCTTCTACGAAGTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000043370:ENSRNOT00000066199:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.343 A=NA C2=0.824
Domain overlap (PFAM):
C1:
PF0001324=KH_1=FE(54.0=100)
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:
GTCCCAATTCCAAGATTTGCTGT
R:
CGTAGAAGGTCTGTGATAATTTCTGC
Band lengths:
194-297
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]