DreINT0130999 @ danRer10
Intron Retention
Gene
ENSDARG00000059460 | sbf2
Description
SET binding factor 2 [Source:ZFIN;Acc:ZDB-GENE-030911-10]
Coordinates
chr7:66783819-66784129:+
Coord C1 exon
chr7:66783819-66783927
Coord A exon
chr7:66783928-66784015
Coord C2 exon
chr7:66784016-66784129
Length
88 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
3' ss Seq
GTTTTGGTTTCTGTTTACAGCTC
3' ss Score
9.17
Exon sequences
Seq C1 exon
CTACCCTTACATTCCTGTCCTCCCGTCCCGCCTGTTGGAGGTGTTGAGTTCTCCTACACCCTTCATCATCGGCGTTCACTCCATGTTCCAGAGCGAGATCCAGGAGCTG
Seq A exon
GTGAGGCCTTGCAGAAAAGACACATTTTTCAGTGCTGCTCCGTCATTCATTCGGGGATTTCTGATTGGGTTTTGGTTTCTGTTTACAG
Seq C2 exon
CTCGATGTGATCATTGCTGACCTTGATGGAGGAACGATAAAAATACCAGAGTGTATCCACCTTTCACAGCTTCCTGAACCCCTGTTGCACAACACTCAAAAAGCACTGTTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000059460:ENSDART00000082664:8
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:
PF0214116=DENN=FE(19.7=100)
A:
NA
C2:
PF0214116=DENN=PD(5.5=26.3)
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:
GCCTGTTGGAGGTGTTGAGTT
R:
CAACAGGGGTTCAGGAAGCTG
Band lengths:
167-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]