Special

MmuALTA0006017-2/2 @ mm9

Alternative 3'ss

Gene
ENSMUSG00000078580 | E430018J23Rik
Description
RIKEN cDNA E430018J23 gene [Source:MGI Symbol;Acc:MGI:2141981]
Coordinates
chr7:134536515-134537133:-
Coord C1 exon
chr7:134536767-134537133
Coord A exon
chr7:134536626-134536628
Coord C2 exon
chr7:134536515-134536625
Length
3 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGA
5' ss Score
6.04
3' ss Seq
TTTGCTATCTTTCCCTCCAGAAG
3' ss Score
10.61
Exon sequences
Seq C1 exon
GTTCATCACCACGTCTTGCATCTGTACCTGCTTCTAGGAATCTTCAATTTTCACCTACATTAGGGTGCTCACGGACCTGATATATGTCCTTTCTCAGCCCTGGTACCCCACCGCGGCAACCTAGGATCTGGCAGGCGATCCAGGGGACGCCAGGCAGATCACGGAACAGTGCGGGGAGTCCCCATGGCGCCGCGGATGGCCCCGGAAAGGGCCTCCGCTTGGCCTGCATTCCTTAAGCCTGGGACTGTGAGCTTCGCGGACGTGGCCGTGTACTTCTCCCCGGAGGAGTGGAGGTGTCTGCGGCCGGCGCAGAGAACCCTGTACCGAGAGGTGATGCGCGAGACCTATGGTCTCCTGGCCTCTCTGG
Seq A exon
AAG
Seq C2 exon
TCGGGGGCGACAAACCAGCGCTCATCTGCTGGGTGGAGGAAGAGTCCGAAGTGTGGGGACCCGGTGCCCAGGAGCCAGAGGTGGCCATGTGCAGGACAGAAGTCCACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000078580-1-1,1-0-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact





	

	
Protein isoform when splice site is used (Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.032 A=NA C2=0.444
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0135222=KRAB=WD(100=66.1)

							
A:
NA

							
C2:
PF0135222=KRAB=PD(0.1=0.0)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000126288





     
                   









    
Main Skipping Isoform:
ENSMUSP00000101910





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000073867, ENSMUSP00000128309
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr16:30569168-30569169 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr25:27017923-27018036 
HIGH PSI
BtaALTA0034109-2/2
(ZNF689)
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: 
GCAGAGAACCCTGTACCGAGA

				
R: 
CTCTTCCTCCACCCAGCAGAT

				
Band lengths: 
103-106

			

		

	





	
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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