HsaALTD1010268-2/2 @ hg38
Alternative 5'ss
Gene
ENSG00000105717 | PBX4
Description
PBX homeobox 4 [Source:HGNC Symbol;Acc:HGNC:13403]
Coordinates
chr19:19569449-19570299:-
Coord C1 exon
chr19:19570109-19570299
Coord A exon
chr19:19570099-19570108
Coord C2 exon
chr19:19569449-19569584
Length
10 bp
Sequences
Splice sites
5' ss Seq
CCTGTACGT
5' ss Score
5.32
3' ss Seq
GAAGGCGGCTGTTTTTGCAGGCG
3' ss Score
4.94
Exon sequences
Seq C1 exon
GCCTGTCGTGAGTTCACCACGCACGTCACCAACCTCCTCCAGGAGCAGAGCAGGATGAGGCCTGTCTCCCCTAAGGAGATTGAGCGCATGGTCGGCGCCATTCACGGCAAGTTCAGCGCCATCCAGATGCAGTTGAAGCAGAGCACCTGTGAGGCAGTGATGACCCTGCGTTCGCGGCTGCTCGATGCCAG
Seq A exon
GTCAGGGCCT
Seq C2 exon
GCGCAAGCGGCGGAATTTCAGCAAGCAGGCGACGGAAGTGCTGAATGAGTATTTTTACTCCCATCTGAACAACCCTTACCCCAGCGAAGAAGCCAAAGAAGAGCTGGCCAGGAAGGGCGGCCTCACCATCTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000105717-18-14,19-14-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.300 A=NA C2=0.239
Domain overlap (PFAM):
C1:
PF037928=PBC=PD(30.8=95.3),PF070286=DUF1319=PD(62.5=85.9),PF0004624=Homeobox=PU(0.1=0.0)
A:
NA
C2:
PF0004624=Homeobox=PU(75.0=97.8)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCTGTGAGGCAGTGATGAC
R:
ACTCATTCAGCACTTCCGTCG
Band lengths:
98-108
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains