DreINT0133402 @ danRer10
Intron Retention
Gene
ENSDARG00000003920 | setb
Description
SET translocation (myeloid leukemia-associated) B [Source:ZFIN;Acc:ZDB-GENE-030131-433]
Coordinates
chr21:13131211-13131581:-
Coord C1 exon
chr21:13131468-13131581
Coord A exon
chr21:13131382-13131467
Coord C2 exon
chr21:13131211-13131381
Length
86 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
TAATCAATTCTCTGATGCAGGAC
3' ss Score
7.36
Exon sequences
Seq C1 exon
TACTTTGATGAAAATCCCTACTTTGAAAACAAAGTTTTCTCAAAAGAGTTCCATTTGAATGAGAGCGGTGACCCGTCTTCAAAATCCACTGAAATCAAATGGAAGGCTGGAAAA
Seq A exon
GTGAGTTAACAACTATTATTATTATTATATTGAAGACCGTTTTAGCTCATAAAGTTGGTTCTCTATTAATCAATTCTCTGATGCAG
Seq C2 exon
GACCTGACAAAGCGCACTGGACAGACACCGAACAAGGCAGGGAAGAAAAGGCAACATGAAGAGCCAGAGAGCTTCTTCACCTGGTTCACCGATCACTCCGACGCAGGCGCTGACGAACTCGGAGAGGTCATTAAAGATGACATCTGGCCCAACCCTCTGCAGTACTACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000003920:ENSDART00000023834:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.947
Domain overlap (PFAM):
C1:
PF0095613=NAP=FE(18.9=100)
A:
NA
C2:
PF0095613=NAP=FE(28.6=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:
GGTGACCCGTCTTCAAAATCCA
R:
TGACCTCTCCGAGTTCGTCAG
Band lengths:
178-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]