Special

MmuALTA0003039-1/2 @ mm9

Alternative 3'ss

Gene
ENSMUSG00000038330 | C87499
Description
expressed sequence C87499 [Source:MGI Symbol;Acc:MGI:2140706]
Coordinates
chr4:88275106-88276043:-
Coord C1 exon
chr4:88275733-88276043
Coord A exon
NA
Coord C2 exon
chr4:88275106-88275259
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
TCTACAAATTTCTCCCACAGTAG
3' ss Score
6.68
Exon sequences
Seq C1 exon
CATGACTCTTTAGAAGAGGAAACAATGAATGCCTACTCCCCACCCACCCTCCTGCAGCTGGCAAGGCAGAAGCTACTGAGGGAGGAGGCCTTGGCCATTTCTGCTCTCAAGGACCTACCCAGAGAGCTGCTACCAGAGATGTTTGAGGAGGCCTTCACTGATGAATGTACAAAGACCTTAAGGGCCATGATACCTATGTGGCCCTTCCCATGCCTTCCTGTAGGAACGCTGATAAAGAACCCCAACCTGGAGACTTTGAAGGCTGTGCTTGAGGGACTAGATATACTGCTTGCACCAAAGGTTCGCTCCAG
Seq A exon
NA
Seq C2 exon
TAGGTGCAAACTCAGAGTACTCAATTTGAGGAATGAGCACCATGAGTTTTGGAGGATATGGGCTGGATCCCATGAAGATGAATGCTTACCACAGTTGACACAGAAGCAGCCAGTGGAGAATAGTCCTGACTGTGGAGTGAAGAAACATTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038330-1-2,1-1-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact





	

	
Protein isoform when splice site is used (Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.061 A=NA C2=0.086
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000056691





     
                   









    
Main Skipping Isoform:
ENSMUSP00000102760





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000102761
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr1:13609819-13609820 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr16:56096167-56096168 
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: 
GCCATGATACCTATGTGGCCC

				
R: 
CACTGGCTGCTTCTGTGTCAA

				
Band lengths: 
243-360

			

		

	





	
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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