DreINT0070516 @ danRer10
Intron Retention
Gene
ENSDARG00000029248 | fubp1
Description
far upstream element (FUSE) binding protein 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2159]
Coordinates
chr2:8857813-8858139:+
Coord C1 exon
chr2:8857813-8857958
Coord A exon
chr2:8857959-8858062
Coord C2 exon
chr2:8858063-8858139
Length
104 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGG
5' ss Score
5.42
3' ss Seq
TATTTTATTTTTATCCTCAGTGG
3' ss Score
8
Exon sequences
Seq C1 exon
GGTCCAGTTAGCCCTATGGGTGGTCCTCATGGTCCACCTGGGCCACATGGAGGACCTTCTCATGGACCTCCTGGTCCTCAGGGACCACCTGCTCCCATGGGCCCTTACAACCCTGGGCCTTATGGCCAGGGCCCACCTGGACCACA
Seq A exon
GTAAGGACTTGTTACATTGTTTACTTTGTGACTGTGTTTTTGCTTATTTGTTGGGAGCCAGTTCAGTTGGATATGAACTTGGTGTATTTTATTTTTATCCTCAG
Seq C2 exon
TGGACCCCCAGCACCATACCAACCTCAAGGCTGGGGCAATGGATACCCCCACTGGCAGCAAGGACAGCCTGATCCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000029248:ENSDART00000081442:14
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:
AGTTAGCCCTATGGGTGGTCC
R:
TAGGATCAGGCTGTCCTTGCT
Band lengths:
218-322
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]