GgaEX1042242 @ galGal4
Exon Skipping
Gene
ENSGALG00000003429 | PBX1A
Description
pre-B-cell leukemia transcription factor 1 [Source:RefSeq peptide;Acc:NP_990077]
Coordinates
chr8:5196891-5205291:-
Coord C1 exon
chr8:5205132-5205291
Coord A exon
chr8:5198421-5198533
Coord C2 exon
chr8:5196891-5196980
Length
113 bp
Sequences
Splice sites
3' ss Seq
CCTCACTCTTTCCTTTCCAGGTT
3' ss Score
12.04
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
Exon sequences
Seq C1 exon
GTATCAAACTGGTTTGGAAATAAGAGAATCCGGTACAAGAAGAACATAGGTAAATTTCAAGAGGAAGCCAATATTTATGCTGCCAAAACGGCTGTCACGGCTACCAATGTGTCAGCCCATGGAAGCCAGGCTAACTCACCCTCAACTCCCAATTCAGCTG
Seq A exon
GTTCTTCCAGTTCTTTTAACATGTCAAACTCTGGAGATTTGTTCATGAGCGTGCAGTCTCTCAATGGGGATTCTTACCAAGGGGCCCAGGTTGGAGCCAACGTGCAGTCACAG
Seq C2 exon
GTGGATACCCTTCGCCATGTTATCAGCCAGACAGGAGGATACAGTGACGGACTCGCAGCAAGTCAGATGTATAGTCCGCAGGGCATCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003429_MULTIEX1-2/3=1-3
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=0.342 C2=0.688
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PD(21.7=24.1)
A:
NO
C2:
NO
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGTTTGGAAATAAGAGAATCCGG
R:
ACTGATGCCCTGCGGACTATA
Band lengths:
242-355
Functional annotations
There are 2 annotated functions for this event
PMID: 26705333
Forcing inclusing of exon 7 in ESCs (deleting PTBP1 binding sites) induces expression of many neural genes, including Phox2b (highest change).
PMID: 32156753
Pbx1 is expressed throughout the olfactory bulb dopaminergic neurons. The exon 7 inclusion isoform (Pbx1a) is the primary isoform in olfactory bulb mature dopaminergic neurons, while the exclusion isoform (Pbx1b) is mostly expressed in SEZ cycling neural stem cells progenitors and immature migrating neuroblasts in the subependymal zone and in the Rostral migratory stream. Pbx1a, but not Pbx1b, specifically rescues the olfactory bulb dopaminergic neurons terminal differentiation in Pbx1 KO mice.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]