Special

MmuEX6073821 @ mm10

Exon Skipping

Gene
ENSMUSG00000028125 | Abca4
Description
ATP-binding cassette, sub-family A (ABC1), member 4 [Source:MGI Symbol;Acc:MGI:109424]
Coordinates
chr3:122085534-122087491:+
Coord C1 exon
chr3:122085534-122085673
Coord A exon
chr3:122086559-122086675
Coord C2 exon
chr3:122087294-122087491
Length
117 bp
Sequences
Splice sites
3' ss Seq
TTTCTGTGTGTCTATTTTAGGCC
3' ss Score
13.31
5' ss Seq
CGAGTAAGG
5' ss Score
6.93
Exon sequences
Seq C1 exon
CATCCTTTTGTAATTCATTGATCCAGAGCCTGGAGTCAAACCCTTTAACCAAAATAGCCTGGAGGGCGGCAAAGCCATTGCTGATGGGAAAAATCCTCTTTACTCCAGATTCCCCTGCTGCTCGAAGGATAATGAAGAAT
Seq A exon
GCCAACTCAACTTTTGAAGAACTGGATCGAGTTAGGAAGTTGGTAAAAGCCTGGGAGGAAGTGGGGCCCCAGATCTGGTACTTCTTTGAGAAGAGCACACAGATGACCGTGATCCGA
Seq C2 exon
GACACCCTGCAGCACCCAACCGTCAAAGACTTCATAAATAGGCAGCTCGGAGAAGAAGGCATTACCACCGAAGCCGTATTAAACTTCTTCTCTAACGGTCCCCAAGAGAAGCAGGCTGATGATATGACCAGCTTTGACTGGAGGGACATATTCAACATCACTGACCGATTCCTACGCTTGGCTAATCAATACCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028125-'9-17,'9-15,20-17=AN
Average complexity
A_S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms (Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=0.000 C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NO

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000013995





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm9




Conservation


Human
(hg38)
chr1:94078590-94078706 
ALTERNATIVE
HsaEX6032188
(ABCA4)
Human
(hg19)
chr1:94544146-94544262 
HIGH PSI
HsaEX6032188
(ABCA4)
Rat
(rn6)
chr2:225690365-225690481 
ALTERNATIVE
RnoEX0004876
(Abca4)
Cow
(bosTau6)
chr3:49589289-49589405 
BtaEX6016521
(ABCA4)
Chicken
(galGal4)
chr8:12625359-12625475 
HIGH PSI
GgaEX6044209
(ABCA4)
Chicken
(galGal3)
chr8:14374792-14374908 
GgaEX6044209
(F1N8D7_CHICK)
Zebrafish
(danRer10)
chr2:15572858-15572974 
HIGH PSI
DreEX6026115
(abca4b)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
AGAGCCTGGAGTCAAACCCTT

				
R: 
GCTGGTCATATCATCAGCCTGC

				
Band lengths: 
248-365

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 2 annotated functions for this event 


PMID: 11320094
HsaEX6032188
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: not specified. ELM ID: ELMI000562; ELM sequence: ANSTFE; Overlap: FULL


PMID: 11320094
HsaEX6032188
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: not specified. ELM ID: ELMI000563; ELM sequence: DNSTQM; Overlap: FULL


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • 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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