DreINT0110765 @ danRer10
Intron Retention
Gene
ENSDARG00000013615 | pbx3b
Description
pre-B-cell leukemia homeobox 3b [Source:ZFIN;Acc:ZDB-GENE-000405-3]
Coordinates
chr8:33934260-33935068:-
Coord C1 exon
chr8:33934903-33935068
Coord A exon
chr8:33934338-33934902
Coord C2 exon
chr8:33934260-33934337
Length
565 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGC
5' ss Score
8.8
3' ss Seq
CCCCTTTTTCTTGCACCCAGGAT
3' ss Score
9.45
Exon sequences
Seq C1 exon
GTATCCAACTGGTTCGGCAACAAGAGGATCCGCTACAAAAAAAACATCGGCAAGTTCCAAGAGGAGGCCAACCTGTATGCCGCTAAGACAGCCGTGACTGCAGCACATGCAGCAGCTGCCGCCGTCCAGAATAGTCAGACCAACTCACCCACCACACCCAACTCCG
Seq A exon
GTAAGCTTGCACCATTCCCGGACGAGCCCCCTAAAAACCAACCAGCCATCCAAAATCCCAGTTTGGTCCCTTCTGAACCTCTGCTCCCTTTGGCACGCTGGTTGGTTGCTGTGACAGTGAGAGGTCCCAGCCTGGGGGATGAGCCTCACTCTCCTGCCTATGAGACTATACATGCTGAACGAGACGAGCAAAGTCAAGCAGAAACTGTGTGCACATGCTGAATATGTTTGCAGAATTGAGGGGTGGGAGGGTGGTGGTGCTGGTGGGGGTAGAAGAGATAATCTTCACCCACTGTCCTCCCTTCCTATCCATAAATATGTGACAGTGTTACCCCCGCTGTGAATTGATGGAAATCTCTTGCTCGGAGCATGTTACGCTCTTAAAGAAATGTATAGTTTGGAATGATGATGAATATTTTATTAGTAGAATGATGCAGTGTGTAGCTTAAATGTATGCTCTTTAAACATAATAAGCAGAAGATTTGACTGTAATATGGACATGGCTTAAACCCTGAGGAGTTGTGGGTAAGCAATTTTTTAAGGGGTCCCCTTTTTCTTGCACCCAG
Seq C2 exon
GATTCCAGATGAAAGATGAAGAATTTCAGCTGGATTCTGCAGAGAACAAAAACACTCTATTAACCAACATGTTCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013615:ENSDART00000105204:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.321 A=NA C2=0.491
Domain overlap (PFAM):
C1:
PF0044324=UCH=PD(17.5=89.3),PF0004624=Homeobox=PD(21.7=23.2)
A:
NA
C2:
PF0044324=UCH=PD(10.4=92.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCAACTGGTTCGGCAACAA
R:
AGTGAACATGTTGGTTAATAGAGTGT
Band lengths:
241-806
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]