DreINT0130961 @ danRer10
Intron Retention
Gene
ENSDARG00000059460 | sbf2
Description
SET binding factor 2 [Source:ZFIN;Acc:ZDB-GENE-030911-10]
Coordinates
chr7:66787552-66788008:+
Coord C1 exon
chr7:66787552-66787629
Coord A exon
chr7:66787630-66787894
Coord C2 exon
chr7:66787895-66788008
Length
265 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
CCTTTTCTTGTTTCGGACAGGAT
3' ss Score
8.6
Exon sequences
Seq C1 exon
GTTTTGCACCCAGATCTGGAAGGAGCAGATAATGCCTTCCCACCCCCTCGTTCTGCTCCATCCAACCTCAAACTGCTG
Seq A exon
GTAAGATCATCGAAGGTCTCTTATTTTTTTTACTTTTACAATCTTACTGTCAGTGGAATGTGTGTCTGAACACTCGGGGAGTCTCCTATATTGAGTCTTGGGGGTGTCTGACATATCTGTTCATTAAAGGAGTTTGAACTCCCATCACGTTCGCAGGTTATTTTGAGATGCACGAAAATGCTCAGTCTGACTTACTCCATCCTCATATGTGTATCTGGAATGCTTCTCAGTCCCTTCTATTCTGGCCTTTTCTTGTTTCGGACAG
Seq C2 exon
GATAAGGAGGTGAGGGCCGTCTTCCTGCGCTTGTTTGCACAACTCTTCCAGGGCTACAGGTCCTGTCTGCAGCTCATTCGCATCCATTCCGAACCCGTGATTCACTTTCACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000059460:ENSDART00000082664:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.115 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
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGATCTGGAAGGAGCAGATAA
R:
TGAATCACGGGTTCGGAATGG
Band lengths:
172-437
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]