Special

MmuEX0023011 @ mm9

Exon Skipping

Gene
ENSMUSG00000055632 | Hmcn2
Description
hemicentin 2 [Source:MGI Symbol;Acc:MGI:2677838]
Coordinates
chr2:31243687-31244969:+
Coord C1 exon
chr2:31243687-31243965
Coord A exon
chr2:31244523-31244631
Coord C2 exon
chr2:31244775-31244969
Length
109 bp
Sequences
Splice sites
3' ss Seq
GCAGCATGTCCTGCCCACAGTGC
3' ss Score
6.24
5' ss Seq
CCAGTATGT
5' ss Score
5.8
Exon sequences
Seq C1 exon
TTCCACCTACCATTGAGGGTGCTGACGGAGGGCCATACCTGGTGCAGGCTGTGGCTGGGAGACCCGTGGCACTGGAGTGTGTGGCCAGAGGCCATCCACCCCCTACGATCTCCTGGCAGCATGAAGGGCTGCCAGTGGTGGACAGTAATGGGACATGGCTGGAGGCAGGAGGTGCCCTGCAGCTGGAGAACCCAGGAGAGGCATCCGGTGGCCTCTACAGCTGTGTGGCCAGCAGCCCCGCTGGAGAGGCTGTACTGCAGTACTCAGTGGAGATGCAGG
Seq A exon
TGCCCCCACAGCTGCTGGTGGCTGAAGGCATGGGCCAGGTCACTGCCACCGTGGGACAGTCTCTGGATCTTCCCTGCCAGGCATCAGGCTCCCCAGTGCCCACCATCCA
Seq C2 exon
ATGGTTACAGAATGGTCGCCCAGCAGAGGAGCTGGCTGGGGTGCAGCTGGCCTCACAGGGGACCATACTGCACATCAGCCACGTGGAGCTGAACCACTCAGGCCTCTTTGCCTGCCAGGCCACCAACGAGGCAGGAACAGCTGGGGCTGAGGTGGAGGTCTCTGTGCATGGTAAGCAGGTATCTGTGAATCTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000055632-'33-34,'33-33,34-34
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
ORF disruption upon sequence exclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.160 A=0.054 C2=0.152
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0767911=I-set=WD(100=91.5)

							
A:
PF0767911=I-set=PD(0.1=0.0),PF0767911=I-set=PU(34.9=81.1)

							
C2:
PF0767911=I-set=PD(64.0=83.3)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000109160f4962A





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000109160
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr9:130355746-130355854 
HIGH PSI
HsaEX6063510
(HMCN2)
Human
(hg19)
chr9:133231133-133231241 
ALTERNATIVE
HsaEX6063510
(HMCN2)
Rat
(rn6)
chr3:10459621-10459729 
Cow
(bosTau6)
chr11:100699766-100699874 
HIGH PSI
BtaEX6046748
(HMCN2)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TACGATCTCCTGGCAGCATGA

				
R: 
GCTGATGTGCAGTATGGTCCC

				
Band lengths: 
255-364

			

		

	





	
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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