DreINT0130922 @ danRer10
Intron Retention
Gene
ENSDARG00000062968 | sbf1
Description
SET binding factor 1 [Source:ZFIN;Acc:ZDB-GENE-040718-139]
Coordinates
chr4:9960842-9961210:+
Coord C1 exon
chr4:9960842-9960919
Coord A exon
chr4:9960920-9961096
Coord C2 exon
chr4:9961097-9961210
Length
177 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
TTGTTTTATGTGCTCTGCAGGAT
3' ss Score
9.85
Exon sequences
Seq C1 exon
GTTCTGGATCCAGAGCTGGAAGTGGCTGATCACGCTTTTCCTCCACCTTCCATTCAACCCTCCGCTCTTAAGATTCAG
Seq A exon
GTACTTTTCCTTTGTGAATCTATAAATATGTTGTTCCTCCTTCCTTGTGTATAACAATCAGCATCTTACATAACGTATAAAATGCAAATTTTTCTAGCTGAATCTCTTCGGGTTGATGTGACATTGCAGGATGTGCTTTGTTTTAATGAAAGTTGAATTGTTTTATGTGCTCTGCAG
Seq C2 exon
GATAAAGAGATCCGCGCTGTCTTCCTGTGGCTGTTCTCGCAGCTCTTTCAGGGCTATCGGTGGTGTTTGCACATCATTCGCATCCACCCTGAACCCGTCATCCGCTTCCATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062968:ENSDART00000109452:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0345514=dDENN=PU(0.1=0.0)
A:
NA
C2:
PF0345514=dDENN=FE(52.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCTGGAAGTGGCTGATCAC
R:
CTTATGGAAGCGGATGACGGG
Band lengths:
180-357
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]