Special

MmuALTA0008383-2/2 @ mm9

Alternative 3'ss

Gene
ENSMUSG00000004894 | Hapln2
Description
hyaluronan and proteoglycan link protein 2 [Source:MGI Symbol;Acc:MGI:2137300]
Coordinates
chr3:87827687-87828393:-
Coord C1 exon
chr3:87828252-87828393
Coord A exon
chr3:87827932-87828040
Coord C2 exon
chr3:87827687-87827931
Length
109 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGA
5' ss Score
9.84
3' ss Seq
ACTGTGGCCCCTCTGCTCAGCCC
3' ss Score
5.82
Exon sequences
Seq C1 exon
TACTAGGGAGTGCCCACCACCTGTGCCCTGCAGACGGTGCTTGCTGACACCATCATGCCAAGCAGGATCCCTCTCCCTGCGTTCTGCTGCTTCCTTCTCCCCTGGGCCTTCACCAGCTTTCACAAAGCCCTGGGGAATCCGG
Seq A exon
CCCCCCATCCGGGTCCCCACTACCTCCTGCCCCCCATCCACGAGGTCATTCACTCTCGTCGTGGGGCCACGGCCACACTGCCCTGCGTCCTGGGCACCTCGCCTCCCAG
Seq C2 exon
CTACAAAGTACGCTGGAGCAAAGTGGAGCCCGGTGAGCTGCGGGAAACGCTAATCCTCATTACCAACGGACTGCACGCCCGGGACTACGGGCTCCTGGGAGGGCGCGCCAGCTTGCGGAGAGGGCATCGGCTGGACGCCTCCCTGATCATCAAGAACGTGCGTCTGGAGGATGAGGGTCGGTACCGCTGCGAGCTCATCAATGGCATTGAGGACGAGAGCGTGGCACTGACCCTGCGCCTGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004894-2-3,2-2-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact





	

	
Protein isoform when splice site is used (Ref)





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000005014





     
                   









    
Main Skipping Isoform:
ENSMUSP00000125271





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events







Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr1:156593597-156593598 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr3:14256163-14256516 
ALTERNATIVE
BtaALTA0013584-3/3
(HAPLN2)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr25:897968-897969 
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TTGCTGACACCATCATGCCAA

				
R: 
TCTTGATGATCAGGGAGGCGT

				
Band lengths: 
257-366

			

		

	





	
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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