HsaINT0120868 @ hg19
Intron Retention
Gene
ENSG00000167081 | PBX3
Description
pre-B-cell leukemia homeobox 3 [Source:HGNC Symbol;Acc:8634]
Coordinates
chr9:128724381-128725380:+
Coord C1 exon
chr9:128724381-128724493
Coord A exon
chr9:128724494-128725290
Coord C2 exon
chr9:128725291-128725380
Length
797 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TTGTTTTGTCTCACTTCTAGGTG
3' ss Score
12.31
Exon sequences
Seq C1 exon
GTTCTTCTGGTTCTTTTAACCTCCCAAATTCTGGGGACATGTTCATGAACATGCAGAGTCTGAATGGGGATTCTTACCAAGGGTCCCAAGTCGGAGCCAATGTGCAATCACAG
Seq A exon
GTAGGAGAAATGCCCCAGTGGGGCCTTTCTAGCAGGGTAGGGTTTGGGCTCAAAACTCCTTCCTCTGACCCCATGGAAGTGGTCTACACATCCATGCAGAACCTGTGCTGGGTGCTTCCAACCAGGACCCATCTGCCCCACCATTTAATTTAATGAGAAGTCAAGTGAACAGTGACTTGTGATGATTCAAACCTGATAAACTTTGTGAATGCATTCGGCTCTGGCTTGAGCTCATGGAGAGGGGTTGGGTGCATCTTACTTTTGTCACAAAATAGAACAGAAAAATTGAGTGTGCCAGTGTGTATATGGTTTAAGAACATGTTGCTGTTTCATTTCTCAAGTCAGAGTACAAAAACCTGAGTTCTTAAATTATAACTCTATAATTTCTACTCTTTTCTTGTCCTCTTATTTGAGAACAGAACTATTCATATAGTTTTTATACATCTAGATGTATGTGTATGAGACATAGAGAAAGTGAGAGAAAGAGAGTTGAGATAATTCCATATACACAATTCTAAGTAGGCTTTCACCCACAGCCACATCCATTTGGTTGCTGTAGATGGAAAGTTGCATTGCCATGAAGATGTTATTGTTTGGCTGGCATGAAAAACAAAGATTTGTGAGTTTAAATATGCAAAGAATGGTTGAAATTCTGCCAGTCACATTTGATTGATAAATTTGTCTTTCATTGAAGATGTTAAACCCTTGTGGCACACATAATTCAAATTATTTCCTTTTGTAAGTGATGACGTTTTAATAGATTTGGGATGATGAATTTTGTTTTGTCTCACTTCTAG
Seq C2 exon
GTGGATACCCTCCGTCATGTTATCAATCAGACGGGAGGCTACAGTGATGGCCTTGGAGGAAATTCACTGTACAGTCCACATAATTTAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167081-PBX3:NR_024122:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.875 A=NA C2=0.885
Domain overlap (PFAM):
C1:
PF057036=Auxin_canalis=PD(10.5=47.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCTTTTAACCTCCCAAATTCTGG
R:
AAATTATGTGGACTGTACAGTGAATT
Band lengths:
190-987
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)