Special

MmuEX0033848 @ mm10

Exon Skipping

Gene
ENSMUSG00000052534 | Pbx1
Description
pre B cell leukemia homeobox 1 [Source:MGI Symbol;Acc:MGI:97495]
Coordinates
chr1:168191278-168203537:-
Coord C1 exon
chr1:168203347-168203537
Coord A exon
chr1:168195748-168195883
Coord C2 exon
chr1:168191278-168191437
Length
136 bp
Sequences
Splice sites
3' ss Seq
TTCCCTTTCTTGTTCTGAAGGCG
3' ss Score
7.92
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
Exon sequences
Seq C1 exon
GCATGCAATGAATTCACCACCCACGTGATGAACCTCCTTCGAGAGCAAAGCCGGACCAGGCCCATCTCTCCGAAGGAGATCGAGCGGATGGTGAGCATCATCCACCGCAAGTTCAGCTCCATCCAGATGCAGCTGAAACAGAGCACGTGCGAGGCCGTCATGATCCTGCGCTCCCGGTTCCTGGATGCGAG
Seq A exon
GCGGAAGAGACGGAATTTCAACAAGCAAGCCACAGAAATTCTGAATGAATATTTCTATTCCCATCTCAGCAACCCTTACCCCAGTGAGGAAGCCAAAGAGGAGTTAGCCAAGAAGTGCGGCATCACAGTCTCCCAG
Seq C2 exon
GTATCAAACTGGTTTGGAAATAAGCGAATCCGGTACAAGAAGAACATAGGTAAATTTCAAGAGGAAGCCAATATTTATGCTGCCAAAACGGCTGTCACAGCCACCAATGTGTCAGCCCATGGAAGCCAAGCTAACTCGCCCTCTACTCCCAACTCAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052534-'30-12,'30-10,33-12
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
ORF disruption upon sequence exclusion





Show PDB structure

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.225 A=0.051 C2=0.333
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF037928=PBC=PD(30.8=95.3),PF070286=DUF1319=PD(54.2=81.2),PF040917=Sec15=PD(64.6=82.8),PF0004624=Homeobox=PU(0.1=0.0)

							
A:
PF0004624=Homeobox=PU(91.8=97.8)

							
C2:
PF0004624=Homeobox=PD(21.7=24.1)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000135516





     
                   









    
Main Skipping Isoform:
ENSMUST00000176540fB14251





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000066385, ENSMUSP00000072640, ENSMUSP00000134925, ENSMUSP00000140606
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm9




Conservation


Human
(hg38)
chr1:164807542-164807677 
HIGH PSI
HsaEX6034601
(PBX1)
Human
(hg19)
chr1:164776779-164776914 
HIGH PSI
HsaEX6034601
(PBX1)
Rat
(rn6)
chr13:86436590-86436725 
HIGH PSI
RnoEX0063672
(Pbx1)
Cow
(bosTau6)
chr3:4278465-4278600 
HIGH PSI
BtaEX6013742
(PBX1)
Chicken
(galGal4)
chr8:5207929-5208064 
HIGH PSI
GgaEX1042239
(PBX1A)
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr2:19076596-19076731 
HIGH PSI
DreEX6026379
(pbx1a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GATGGTGAGCATCATCCACCG

				
R: 
GCGAGTTAGCTTGGCTTCCAT

				
Band lengths: 
244-380

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Pre-implantation embryo development
  • Ribosome-engaged transcriptomes of neuronal types
  • Neural differentiation time course
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types





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