Special

MmuEX0002958 @ mm9

Exon Skipping

Gene
ENSMUSG00000051900 | Abca16
Description
ATP-binding cassette, sub-family A (ABC1), member 16 [Source:MGI Symbol;Acc:MGI:2388711]
Coordinates
chr7:127553161-127574763:+
Coord C1 exon
chr7:127553161-127553280
Coord A exon
chr7:127570644-127570771
Coord C2 exon
chr7:127574622-127574763
Length
128 bp
Sequences
Splice sites
3' ss Seq
ACAATTTTGTCCCTCTGTAGTTC
3' ss Score
7.78
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
Exon sequences
Seq C1 exon
AGAGCGGTTGATCCGGGTGTTGAGGGTGTTGAGCGGAAGTGCTGCTCAGGAAAGACTGGAGCCCAGCAGCGATTCATTGGAGGAAACAGGGGCTGTGGAGGCGGTTGCTAGCTCTGAGTG
Seq A exon
TTCGAGGTTTTCCTTCAGAAGCAGAGTTTGAGGAGTACATTCTCTTTGATAATATGTCTCAGAAAGTACTGGCTGCCATTGTTTTTGACTGTGGCTTCAAAAACAAAAGTGATCCTCTGCCACTTCAG
Seq C2 exon
GTAAAATATCACTTGCGTTTTGTTGGTGCACAGAGGACCATCTGGTGGCCAGACAAGTTAGGCTGGAAAACGAGACTTCTCTTTCCTAATCATCCTTCTATACGACCCAGGAATCCAAATTATCTTGATGGAGGAAGTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000051900-'0-3,'0-2,3-3
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact





	

	
ORF disruption upon sequence exclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=NA A=0.000 C2=0.021
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NA

							
A:
PF126982=ABC2_membrane_3=FE(9.8=100)

							
C2:
PF126982=ABC2_membrane_3=FE(10.9=100)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000112736





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000061094
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr25:19635846-19635973 
BtaEX6109090
([1])
Chicken
(galGal4)
chr14:13586007-13586134 
HIGH PSI
GgaEX1005378
(ABCA3)
Chicken
(galGal3)
chr14:14351390-14351517 
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GTTGAGGGTGTTGAGCGGAAG

				
R: 
CAGGACTTCCTCCATCAAGATAA

				
Band lengths: 
244-372

			

		

	





	
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






Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"