Special

MmuEX1014785 @ mm10

Exon Skipping

Gene
ENSMUSG00000038236 | Hoxa7
Description
homeobox A7 [Source:MGI Symbol;Acc:MGI:96179]
Coordinates
chr6:52217030-52218084:-
Coord C1 exon
chr6:52217933-52218084
Coord A exon
chr6:52217415-52217613
Coord C2 exon
chr6:52217030-52217297
Length
199 bp
Sequences
Splice sites
3' ss Seq
CTCTTCCCCTTCCATTCTAGGAG
3' ss Score
12.13
5' ss Seq
CAGGTCAAA
5' ss Score
2.44
Exon sequences
Seq C1 exon
GGCAGATAAACAGTGCGCCGCCGATTAAAGAAAGGAAGCTGAGAGACGTTGACTTTATTCGAACCACATGGTTCCAGTTTGTGGCAGCGGTCTCTCCGCTCGGCTAGAGGAGACACCGCGCCTGCGGTGTTGGCGCTGGAGCATCAAATCAG
Seq A exon
GAGGCAGGCGGCCCGTGGCGCGGGACCACCTGTGAGGGCTGCTGAGATTGGCGGAGGCGGTCATGTGGGCGGTCACGTGCCGCGGCGAGCTCCGTCCAAAAGAAAATGGGGTTTGGTGTAAATCTGGGGGTGTAATGTTATCATATATCACGCTACCTCGTAAAACCGACACTGAAAGCTGCCGGACAACAAATCACAG
Seq C2 exon
AGAAGCGGCTACGGGCCGGGCGCCGGCGCCTTCGCCTCCACTGTGCCGGGCTTATACAATGTCAACAGCCCCCTCTATCAGAGCCCCTTCGCGTCCGGCTATGGCCTGGGAGCCGACGCCTACAACCTGCCCTGCGCCTCCTACGACCAAAACATCCCCGGGCTCTGCAGTGACCTCGCCAAAGGCGCCTGCGACAAGGCGGACGAGGGCGTGCTTCACGGCCCGGCCGAAGCCAGTTTCCGCATCTACCCCTGGATGCGCAGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038236_MULTIEX1-2/2=1-C2
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.033 A=0.273 C2=0.583
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NO

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
ENSMUST00000153280fB11226





     
                   









    
Main Skipping Isoform:
ENSMUSP00000134641





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000048648, ENSMUSP00000138790
          









    
Other Skipping Isoforms:
ENSMUSP00000134610
  



Associated events






Conservation


Human
(hg38)
chr7:27156555-27156754 
Human
(hg19)
chr7:27196174-27196373 
Rat
(rn6)
chr4:82186108-82186306 
Cow
(bosTau6)
chr4:69340529-69340728 
Chicken
(galGal4)
chr2:32964772-32964969 
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr3:23561159-23561290 
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GGCAGATAAACAGTGCGCCG

				
R: 
GAAGGGGCTCTGATAGAGGGG

				
Band lengths: 
242-441

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










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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