Special

MmuALTA0007836-2/2 @ mm9

Alternative 3'ss

Gene
ENSMUSG00000078625 | Gm12789
Description
predicted gene 12789 [Source:MGI Symbol;Acc:MGI:3649399]
Coordinates
chr4:101660694-101661586:+
Coord C1 exon
chr4:101660694-101661007
Coord A exon
chr4:101661232-101661435
Coord C2 exon
chr4:101661436-101661586
Length
204 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TTTTTGTGGCTTTCCTACAGATA
3' ss Score
10.48
Exon sequences
Seq C1 exon
GTTCCTTCTGACTGAATATCTATCAGGATGAGCACCTACAACCCTCCCACACTCCTGCAGCTGGCACTGGACGGGGTGCTGAGGAAGGATTCCATAGACTTCTCTGATCTGGAGTACCTGCCCATCACGCTCTTCCCACCACTCTTCATAAAGGCCTTCAATAGCAGACACACAGAGATAGTAAAGAAAATGGTGGCAACCTGGCCCTTTCCCTGCCTCCCTGTGGGGACACTGCTTAAAACCGCTGGTGTGGAGATGCTGCAAGCTGTGCTGGATGGCATAGATATACTGCTGACACAGAATGTTAGTCTCAG
Seq A exon
ATACTAGATATGGAAGAGACACAAGCCAAGAGCAACTAAATGGAGGGAAGTGGGGCATGTCTCCAGATGCAGCTCATGCAGTGTTCTTGCCTGCCTGGTGTGAGGTGCTATGATGGAGCTGACATTAGACAAGTGGGATCCAAGCTGACTCCATGTTGGTTCCTGTTTTACATTATGAAACTTTGCCTTTATCCCTCACCGAAG
Seq C2 exon
GTGCAAGCTTCAAGTGTTGGAGTTGAGAGATGTACACCAGCATTTCTGGGATGTATGGGCTGGAAGAGAGGATGAAGTCCACTCAGCAGAGACTAAGAGTGAGAAGAAAGTAGGAGAGCGCATTTCTAGAAAACCACCGAGAGGTGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000078625-1-3,1-2-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption when splice site is used (sequence inclusion)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.235
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
PF117173=Tudor-knot=PU(78.0=76.5)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000102527





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000102528
  



Associated events







Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr1:13389187-13389188 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr16:55729745-55729746 
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: 
TACAACCCTCCCACACTCCTG

				
R: 
ACTCCAACACTTGAAGCTTGCA

				
Band lengths: 
301-505

			

		

	





	
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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