Special

MmuEX6028047 @ mm9

Exon Skipping

Gene
ENSMUSG00000066842 | Hmcn1
Description
hemicentin 1 [Source:MGI Symbol;Acc:MGI:2685047]
Coordinates
chr1:152707349-152840565:-
Coord C1 exon
chr1:152839914-152840565
Coord A exon
chr1:152723555-152723625
Coord C2 exon
chr1:152707349-152707507
Length
71 bp
Sequences
Splice sites
3' ss Seq
TTTTTTTTTAATCTCCACAGAAA
3' ss Score
10.69
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
Exon sequences
Seq C1 exon
CGCCGCATCCCTGCCCAGCCCAGCCCAGCTCCTGGAGGCAGCCGGGCTCCGGGTTGGTCTGCATCTCATTCTCCGCTCCAAAACTTTTGAGTTAGTTCAGAGACTGCAAAAGCCTGATGAGGCACCAGAGAGGAAGCCAGTCCTCTGCCTGCTGTTGAGGAGTAAGCACAGTGGTTAGGAGCTTAGGGCAAAGAGAAAAGCAGCGAGCAAAACAAGAAAAGAAAAGAAAAAAATGATTGCCCAGGAAGTGGTCCACACAGTATTCCTGGTGGCTCTTTTTCGTTCTTCCCTAGCTGGAGATGGGACTCCGCAGTCTGAGAGCAGGGCTGAGGAGATTCCTGAGGGGGCGTCCACGCTGGCTTTTGTGTTTGATGTGACTGGGTCCATGTATGATGATTTAGTTCAGGTTATTGAAGGGGCTTCCAAAATTTTGGAGACGTCTTTGAAAAGACCTAAGAGACCTCTTTACAACTTTGCTTTGGTGCCCTTCCATGATCCAG
Seq A exon
AAATTGGTCCAGTGACAATTACCACAGATCCAAAAAAATTTCAGTATGAATTGAGAGAACTGTATGTTCAG
Seq C2 exon
GGAGGTGGTGACTGTCCAGAAATGAGCATCGGGGCTATAAAGATTGCCTTGGAAATCTCTCTTCCTGGGTCCTTCATCTATGTTTTCACTGATGCACGATCCAAGGATTATCGGCTCACCCATGAGGTGCTGCAGCTTATCCAACAGAAACAATCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066842-'0-1,'0-0,1-1=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
ORF disruption upon sequence exclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.111 A=0.000 C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF135191=VWA_2=PU(28.5=54.4)

							
A:
PF135191=VWA_2=FE(13.4=100)

							
C2:
PF135191=VWA_2=FE(30.2=100)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000074340





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000121500
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr1:185846026-185846096 
ALTERNATIVE
HsaEX6035577
(HMCN1)
Human
(hg19)
chr1:185815158-185815228 
HIGH PSI
HsaEX6035577
(HMCN1)
Rat
(rn6)
chr13:68253180-68253250 
HIGH PSI
RnoEX0042100
(Hmcn1)
Cow
(bosTau6)
chr16:68315400-68315470 
HIGH PSI
BtaEX0017221
(HMCN1)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr8_random:220235-220305 
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TTTGCTTTGGTGCCCTTCCAT

				
R: 
GTTGGATAAGCTGCAGCACCT

				
Band lengths: 
173-244

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]










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