HsaINT0120873 @ hg19
Intron Retention
Gene
ENSG00000167081 | PBX3
Description
pre-B-cell leukemia homeobox 3 [Source:HGNC Symbol;Acc:8634]
Coordinates
chr9:128722963-128725380:+
Coord C1 exon
chr9:128722963-128723128
Coord A exon
chr9:128723129-128725290
Coord C2 exon
chr9:128725291-128725380
Length
2162 bp
Sequences
Splice sites
5' ss Seq
CCGGTGCGT
5' ss Score
9.74
3' ss Seq
TTGTTTTGTCTCACTTCTAGGTG
3' ss Score
12.31
Exon sequences
Seq C1 exon
GTATCCAATTGGTTTGGCAACAAACGAATCAGGTACAAGAAGAACATTGGCAAGTTTCAGGAAGAAGCCAACCTCTATGCTGCAAAGACGGCCGTGACAGCTGCACACGCAGTAGCAGCAGCTGTGCAGAACAACCAGACCAATTCGCCCACCACACCAAATTCCG
Seq A exon
GTGCGTACTGGGGGCTCGCTCCCCAACTGGCCCAGGCAGCCTTATGCCACAATGCCCTGTCCCACAGGCCAGGAAACAAGAGCCATACTGAGGACAGAGTGGACTTAAAAAGGAAGATTTATGTTCAAATGCAGGCTTGTTCTTGAGATGGGTGAATGAGTGGAAGGTCAGAGCCTGTAAACCCACTCTTCACAGTGAATGCCACTCACTAGTAGATTATGGAAGTTTTACAATTAGTAGTGGCTTTCAGTTCAGTAATTAGGCAGAGTGCTATCGCTCATGACTATTTTAGCTATTTCTTTCCAGATACCACTTTAGGGTCAGTAGTGGTCTGTGGAGAGTGAAATAGCAGAAGTGGGAAATGCAGCAGTTGCTGTGTGTGAGGAAGCTGGAATGCTGGAGGGAAGTGCAGCAGTGCTTTCTGCCCAGCACCGCTGTCCTTTCTCTGCCTTTCAGCAGCACTGTCTGAGCGGGGCTGACGGCATGCTCAGCAGGTGGCTAGCTGTGAGGGTTATGGTGCTTAATACATGCATGCAAGATTCTTGGATCCTCGTCCGGTACATTTTGGCTGCATTTTATGTGACGTTTGTGAGGGGGTTAGAAATACTTTAAAATTTCAGGGAACTTGAATAACAATGAAAGATGTGCAGCTAGTCCAAACAGATGGACTTCAGTAGCAATTCCAGGGGCGTTTCTGAGAAGGTCTCTTAGCTATATCTTTAGAAGTTCAGAAAGTAGGGGGGTTTTTGTTTGTTTTGTCTTGTCTCCTCACCCCCCAGTTCTTTTTAATGGCACATAAAAACAGATGAAAGGAGAGGGAGGTATATGCATAGCGAAGAAAGAGCTCCTGGAAAAGTCTCTTCTCTGGGTGGCTGTCCACTGTGACAGCCATGTTGACAAGCTCGTGTAATGACTAAATCCTGGAGATGAGTGGAAACAAGGGGAAGGGTCCAGGCCAGCTGCTGGGTGTTTTGGTTTATTTTTTCTTTTTAATTTATTTTGATTTGTCTCTTTGTTTTTGCTTTTGTTTTTTAAGTTTGGGCTTCCCCACTGATGGGACTTCTCCTAGATGTGGAGTGACTCACAGGACCCAACTCTCTGGAGTTACTCTCCATCCTCTTAGATCTGGAAATGCTTTATGTTGTGCACAGCCTTTCCCTTCTGTACTTTTTCTCATCTCCCTGCCTCTAGGTCTTTGAGGATTATGTGTGTAGCTCTCTGTTATTCAGCTACTTAACTCTTTCCTTTCCAGGTTCTTCTGGTTCTTTTAACCTCCCAAATTCTGGGGACATGTTCATGAACATGCAGAGTCTGAATGGGGATTCTTACCAAGGGTCCCAAGTCGGAGCCAATGTGCAATCACAGGTAGGAGAAATGCCCCAGTGGGGCCTTTCTAGCAGGGTAGGGTTTGGGCTCAAAACTCCTTCCTCTGACCCCATGGAAGTGGTCTACACATCCATGCAGAACCTGTGCTGGGTGCTTCCAACCAGGACCCATCTGCCCCACCATTTAATTTAATGAGAAGTCAAGTGAACAGTGACTTGTGATGATTCAAACCTGATAAACTTTGTGAATGCATTCGGCTCTGGCTTGAGCTCATGGAGAGGGGTTGGGTGCATCTTACTTTTGTCACAAAATAGAACAGAAAAATTGAGTGTGCCAGTGTGTATATGGTTTAAGAACATGTTGCTGTTTCATTTCTCAAGTCAGAGTACAAAAACCTGAGTTCTTAAATTATAACTCTATAATTTCTACTCTTTTCTTGTCCTCTTATTTGAGAACAGAACTATTCATATAGTTTTTATACATCTAGATGTATGTGTATGAGACATAGAGAAAGTGAGAGAAAGAGAGTTGAGATAATTCCATATACACAATTCTAAGTAGGCTTTCACCCACAGCCACATCCATTTGGTTGCTGTAGATGGAAAGTTGCATTGCCATGAAGATGTTATTGTTTGGCTGGCATGAAAAACAAAGATTTGTGAGTTTAAATATGCAAAGAATGGTTGAAATTCTGCCAGTCACATTTGATTGATAAATTTGTCTTTCATTGAAGATGTTAAACCCTTGTGGCACACATAATTCAAATTATTTCCTTTTGTAAGTGATGACGTTTTAATAGATTTGGGATGATGAATTTTGTTTTGTCTCACTTCTAG
Seq C2 exon
GTGGATACCCTCCGTCATGTTATCAATCAGACGGGAGGCTACAGTGATGGCCTTGGAGGAAATTCACTGTACAGTCCACATAATTTAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167081-PBX3:NR_024123:5
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.334 A=NA C2=0.885
Domain overlap (PFAM):
C1:
PF057036=Auxin_canalis=FE(32.2=100),PF0004624=Homeobox=PD(21.7=23.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)