Special

MmuALTA0011956-1/2 @ mm9

Alternative 3'ss

Gene
ENSMUSG00000006476 | Nelf
Description
nasal embryonic LHRH factor [Source:MGI Symbol;Acc:MGI:1861755]
Coordinates
chr2:24915125-24915730:+
Coord C1 exon
chr2:24915125-24915214
Coord A exon
NA
Coord C2 exon
chr2:24915663-24915730
Length
0 bp
Sequences
Splice sites
5' ss Seq
ACAGTAGGT
5' ss Score
5.67
3' ss Seq
CCCCTCCTGTCCCCAGGCAGTGA
3' ss Score
4.02
Exon sequences
Seq C1 exon
CGTTCGCTGAGCGTCGCGAACGGAGCTTCAGCCGGTCCTGGAGCGACCCCACCCCTATGAAAGCCGACACTTCCCACGACTCCCGAGACA
Seq A exon
NA
Seq C2 exon
TGACCTACAGAGCTCACACTGCACCCTGGATGAGGCTTGTGAGGACCTGGACTGGGACACAGAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006476-14-15,14-14-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption when splice site is used (sequence exclusion)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.790 A=NA C2=0.087
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF139501=Epimerase_Csub=PU(28.3=41.9)

							
A:
NA

							
C2:
PF139501=Epimerase_Csub=PD(69.6=76.2)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000097908





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000006646, ENSMUSP00000074022, ENSMUSP00000099995, ENSMUSP00000110028, ENSMUSP00000110030, ENSMUSP00000112273, ENSMUSP00000120376, ENSMUSP00000121580
  



Associated events






Conservation


Human
(hg38)
chr9:137453177-137453178 
ALTERNATIVE
HsaALTA0005681-1/2
(NSMF)
Human
(hg19)
chr9:140347514-140347628 
LOW PSI
HsaALTA0005681-1/2
(NELF)
Rat
(rn6)
chr3:2267920-2268034 
LOW PSI
RnoALTA0027085-1/2
(Nsmf)
Cow
(bosTau6)
chr11:105679882-105679996 
ALTERNATIVE
BtaALTA0020457-1/2
(NSMF)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr17:2149888-2149889 
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CACCCCTATGAAAGCCGACAC

				
R: 
TTCTCTGTGTCCCAGTCCAGG

				
Band lengths: 
107-111

			

		

	





	
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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