DreINT0133398 @ danRer10
Intron Retention
Gene
ENSDARG00000003920 | setb
Description
SET translocation (myeloid leukemia-associated) B [Source:ZFIN;Acc:ZDB-GENE-030131-433]
Coordinates
chr21:13132694-13133937:-
Coord C1 exon
chr21:13133649-13133937
Coord A exon
chr21:13132752-13133648
Coord C2 exon
chr21:13132694-13132751
Length
897 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAAG
5' ss Score
6.23
3' ss Seq
CCCGTTTTATTGCGTTTCAGAAA
3' ss Score
9.74
Exon sequences
Seq C1 exon
AAAGAGGAGGCGCGCGCTCTGATACGCATCTCTCATTGAGTGTGCGTGTGTTGTATGTGTGGAGGGGAAGCGCAACACACGTTGTGATATTCGCACTTCTAAACTGAGCTCGAACCAACTTTATTTCCCCTTCTTTCGCTTTTCTTGAGCGGAGGAGGACGTTTTGGAGCTTTTGTTTCAGGAGTAAGAAAGCAAATCCTCGGCTGTTGGGAAATAATGTCGGCCTCGGCGGCGAAAGTGAGCCGAAAGGAGCAGAACTCGAATCACGACGGAGCGGACGAGACCTCGG
Seq A exon
GTAAAGTAATGGCGGCCTCCTGCGCACCGCCATTTCCAGAAACTTAAACCAAATGCGTTTAATGCATGAATTTCACTATTAAGTATTTATTACATAATTATTTTAACCTAATTTGGACCTGAATTAATGTTAATTCAATGCAATATAAGTCGTTTTTTGCGAGGGAATTTCAGCTAAAGGATGTCGCGCGCACCGGAGGCCATGATGTTTCCTCGCGCGGCGGCTTCATTGTGCCACGCGCGACGAACATTGAGCTCTTGCGCCGTTAGTAGGTAATAAAAATTATAGTTTACCGGTGGGTTTTATCTGGTAAGGGGACCAAGGCTGTGTTTTTAAAACCAAAGCGAGTCGTGTTATTTGTGCGTTATGTTGTTTTGTGCTAATATGCTAACTGGTTATTGTGTCTCCGCGCCATCACACGCCGTTCCCGCATGTGTCAGAAAACCACGCTGCCGCTGTATCGCAAGTAGCTGTAGACGTGTTTTAGTGATTTTAAATCACGTTTTATTCCGACATAACTTCTAATGCAGGGTCGTATTGTCTGTTTCATTGTGAGGACGGTAAATGTGGCCCAGCGCGTGGCCTCCTCCTCCGTTTAAACCTCGCGGCCTTGCGCAGCAGCTGCTGAAACTGCACCGGATTGAGCTGGTCGCCCGGCGGTACACCTCGCTTTCACTTTTACCTTTCCGTTGTGGGTTTAACCCAGATCGGCTAAAGATAGCGTTGCTTTGTTTCGCTAAGTGCACCTCTAGTCTATACATCGTGTTTACTTTGTTTATTTATATTGAGCTGTTTGCGTGTAGCTTGTAAAGTCGATCTTTTGTTTTAGTTTACACGAGGAATGCACGTGCATTTGACACAATTGTAATTTTTCTCCCCCGTTTTATTGCGTTTCAG
Seq C2 exon
AAAAAGAGCAACAGGAGGCTATTGAACACATTGATGAAGTACAGAATGAAATTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000003920:ENSDART00000023834:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.950
Domain overlap (PFAM):
C1:
PF073527=Phage_Mu_Gam=PU(1.5=4.0)
A:
NA
C2:
PF073527=Phage_Mu_Gam=FE(28.4=100),PF0095613=NAP=PU(7.7=75.0),PF116293=Mst1_SARAH=PU(29.7=55.0)
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:
CGCGCTCTGATACGCATCTC
R:
TGTCAATTTCATTCTGTACTTCATCA
Band lengths:
334-1231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]