DreINT0070523 @ danRer10
Intron Retention
Gene
ENSDARG00000029248 | fubp1
Description
far upstream element (FUSE) binding protein 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2159]
Coordinates
chr2:8854048-8854225:+
Coord C1 exon
chr2:8854048-8854087
Coord A exon
chr2:8854088-8854178
Coord C2 exon
chr2:8854179-8854225
Length
91 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAT
5' ss Score
7.84
3' ss Seq
GCTATCGCATCTCTGTGCAGGTC
3' ss Score
8.64
Exon sequences
Seq C1 exon
CTTTTTCAGCTGTAATGGGAGGCATGGGTGGCCCACCAAG
Seq A exon
GTATATTAAATTGTCACACTAAGTTGTAATGTAATAGATAAACTTCTACATTGCCCATTTTTTTAAATGATGCTATCGCATCTCTGTGCAG
Seq C2 exon
GTCTGTATCTGAAGAGTTCAAGGTCCCAGATGGCATGGTTGGCTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000029248:ENSDART00000081442:4
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=0.471
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0001324=KH_1=PU(20.6=76.5)
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:
CTTTTTCAGCTGTAATGGGAGGC
R:
TGAAGCCAACCATGCCATCTG
Band lengths:
87-178
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]