Special

MmuALTD0006059-1/2 @ mm9

Alternative 5'ss

Gene
ENSMUSG00000073402 | Gm8909
Description
predicted gene 8909 [Source:MGI Symbol;Acc:MGI:3704134]
Coordinates
chr17:36302544-36304636:-
Coord C1 exon
chr17:36304488-36304636
Coord A exon
NA
Coord C2 exon
chr17:36302544-36302819
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
TTCTTAAATCTTCCACACAGATC
3' ss Score
8.54
Exon sequences
Seq C1 exon
AGGATGTACGGCTGTGACCTGGGGTCGGACGGGCGCCTCCTCCGCGGGTACTGGCAGTTCGCTTACGACGGCAGCGATTACATCGCCCTGAACCAAGACCTGAAAACGTGGACGGCGGCGGACTTGGCGGCGCAGATCACTCGACGCAG
Seq A exon
NA
Seq C2 exon
ATCCCCCAAAGGTACATGTGACCCATCATCCCAGATCTGAAGATGATGTCACCCTGAGGTGCTGGGCCCTGGGTTTCTACCCTGCTGACATCACCCTGACCTGGCAGTTGAATGGGGAGGAGCTGACCCAGGACATGGAGCTTGTGGAGACCAGGCCTGCAGGGGATGGAACCTTCCAGAAGTGGGCATCTGTGGTGGTGCCTCTTGGAAAGGAGCAGAATTACACATGCCATGTGTACCATGAGGGGCTGCCTGAGCCCCTCACCCTGAGATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000073402-3-4,4-4-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption when splice site is used (sequence exclusion)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.011 A=NA C2=0.172
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0012913=MHC_I=PD(49.2=94.6)

							
A:
NA

							
C2:
PF0765410=C1-set=WD(100=89.2)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000133663





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000036092, ENSMUSP00000094947
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr6:29911211-29911212 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr23:28505271-28505272 
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr16_random:12847-12848 
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GGGTACTGGCAGTTCGCTTAC

				
R: 
TCTCCACAAGCTCCATGTCCT

				
Band lengths: 
254-364

			

		

	





	
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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