Special

MmuALTD0009863-1/2 @ mm9

Alternative 5'ss

Gene
ENSMUSG00000022283 | Pabpc1
Description
poly(A) binding protein, cytoplasmic 1 [Source:MGI Symbol;Acc:MGI:1349722]
Coordinates
chr15:36525416-36526410:-
Coord C1 exon
chr15:36526314-36526410
Coord A exon
NA
Coord C2 exon
chr15:36525416-36525854
Length
0 bp
Sequences
Splice sites
5' ss Seq
TGAGTTCTC
5' ss Score
-20.92
3' ss Seq
TCTTTTTTTAACATTTACAGATT
3' ss Score
9.04
Exon sequences
Seq C1 exon
GTTGATGAAGCTGTAGCTGTACTACAAGCCCACCAAGCGAAAGAGGCTGCCCAGAAAGCAGTGAACAGTGCCACTGGTGTTCCAACTGTCTAAGTGA
Seq A exon
NA
Seq C2 exon
ATTGATCAGGGACCACGAACAGAAACTCGTGCTTCACCGAAGAAAAATATCTTAAACATCGAAAAATTTAAATATTATGAAAAAAAACATTGCAAAATATAAAATAAATAAAAAAAGGAAAGGAAACTTTGAACCTTATGTACCGAGCAAATGCCAGGTCTAGCAAACAGTGCTAGTCCTAGATTACTTGATTTAAAACAACAAAAAAATACAAAAAAATAGTAAAATATAAAAACAAATTAATGTTTTATAGACCCTGGGAAAAGAATTTTCAGCAAAGTACAAAAATTTAAAGCATTCCTTTCTTTAATTTTGTAATTCTTTACTGTGGAATAGCTTGGGACATCAGCTCTGTTTTAAGGAGCAGAACTGATGACTGAGCAAGGAAACGTAATTTGGATTATAAAATTCTTGCTTTAATAAAAATTCCTTAAACAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022283-22-30,23-30-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact





	

	
3' UTR





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.677 A=NA C2=NA
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0065813=PABP=PD(11.1=25.0),PF085466=ApbA_C=PD(42.2=84.4)

							
A:
NA

							
C2:
NA

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000001809





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000117063
  



Associated events







Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr8:101716518-101716520 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr14:65832225-65832226 
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr2:133698578-133698579 
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TAGCTGTACTACAAGCCCACCA

				
R: 
ATTTTTCTTCGGTGAAGCACGA

				
Band lengths: 
132-172

			

		

	





	
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
  • 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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