DreINT0110759 @ danRer10
Intron Retention
Gene
ENSDARG00000013615 | pbx3b
Description
pre-B-cell leukemia homeobox 3b [Source:ZFIN;Acc:ZDB-GENE-000405-3]
Coordinates
chr8:34075634-34076552:-
Coord C1 exon
chr8:34076323-34076552
Coord A exon
chr8:34075708-34076322
Coord C2 exon
chr8:34075634-34075707
Length
615 bp
Sequences
Splice sites
5' ss Seq
AAAGTTGGT
5' ss Score
1.99
3' ss Seq
CTTGCTCCCAAATGGCACAGGAA
3' ss Score
4.96
Exon sequences
Seq C1 exon
AGCACGAGCGCATTGATTGTGTTGCGGCGGACTATGGACGAGCAAGCCCGGATCATGCAGACTCTCGGCGGTGTCAGCCTGGCTGGTCACTCGGTACAAGGCGGCATGGCTCTGCCGCCTCCACATGGACACGACGGAACCGATGGGGATGGAAGAAAACAAGACATCGGTGACATTCTGCATCAGATCATGACCATCACCGACCAAAGCCTGGACGAGGCGCAAGCAAA
Seq A exon
GTTGGTGCATTTCTGTAATATAAACGCTTGCATTGTTTTCTTAACAAAGTATTCCATGCTTGCTCATTTGATTCTTTACAATAGCTCATGTTGCTTTCATTTACTTTTTTTTTCACACTAGCTAACTTTTAATTTTCACCCACTGGGTCACTATAGTAAACCTAAAAGGTCAAGTTTGCATCTGAAATCCATTTGACAGGTTGAAATCACGTTTCAGTGTCACAAGATCTATCCTAAATCAGAACATTAGCTGCTAAAGTTGTGCATTTTAATGTAAATGATACACAGGTGAAGTGCTCAACACATGTGAGCATCTCATTAAAAGTTTCTACATCTCACTTTTCTGTTTCTGAGCCGAAGAGGCCCTGATACTTTTACAGCCACTAGCCACATACTATAAATCTTTTACTTCTTTGTAAATTAATTTACATATTTAGCACTAATTAATTATACTCTTTGTTGTGAACTTTGTCTGTGTTTATTTCTAACAAACCAATGCAGTTTAAAGATACATTCCAACAGAAGACTTGATGCCTTATGAAGTTTTAATGCGACACAATTATGAGTTTTAAGTGACTATATATCAATCTCGTCTCTTGCTCCCAAATGGCACAG
Seq C2 exon
GAAACATGGGCTCAACTGTCACAGAATGAAGCCAGCCCTCTTCAGTGTGCTCTGCGAGATCAAAGAGAAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013615:ENSDART00000105204:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.803 A=NA C2=0.145
Domain overlap (PFAM):
C1:
PF037928=PBC=PU(14.7=43.9),PF0044324=UCH=PU(6.7=28.8)
A:
NA
C2:
PF037928=PBC=FE(12.7=100),PF0044324=UCH=FE(8.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACGAGCGCATTGATTGTGTT
R:
CTGTTTTCTCTTTGATCTCGCAGA
Band lengths:
302-917
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]