Special

MmuALTD0009496-1/2 @ mm9

Alternative 5'ss

Gene
ENSMUSG00000015094 | Npdc1
Description
neural proliferation, differentiation and control gene 1 [Source:MGI Symbol;Acc:MGI:1099802]
Coordinates
chr2:25264425-25265014:+
Coord C1 exon
chr2:25264425-25264496
Coord A exon
NA
Coord C2 exon
chr2:25264619-25265014
Length
0 bp
Sequences
Splice sites
5' ss Seq
TGTGTATGA
5' ss Score
-0.92
3' ss Seq
TTGACCCAGTATCTTCACAGACA
3' ss Score
3.22
Exon sequences
Seq C1 exon
GCATAAGGAACCTCCAAAGGAACTAGAGTCAGCTTCCTCCGATGAGGAAAATGAAGATGGCGACTTCACTGT
Seq A exon
NA
Seq C2 exon
ACAGGGGAGATGGAGGTGCGCAACCCACTGTTTGACCATTCCACGCTGTCAGCACCAGTGCCTGGTCCCCATTCCTTGCCGCCGCTGCAGTGACTCCTAGGCCCACATGCCTGCAGCCCACAGCCCACCAGTGGGGACGAGCGAGTCCTGGTGTTCCCCATGGAAAAGAGCAGCATTGTGACCCCCGCATGCTTTTGGCAGGAGGGAGGCGCCACCCCTGGACTCCCTTGCCAGGGAGATTCTCCGCCTTATGTGGGAGATCTAGCATCTGCTTGCACATTCTCTGTCTGGTATGAACCCTCAAACTGGAGATCCAAGTCCAGGAACCCTAGAGCCCAGGCATGGATAGAGAGTTTTGGAGACAAAAGCCAATTAAAGTTTTTTTCAAACCTGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015094-22-34,23-34-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact





	

	
Protein isoform when splice site is used (No Ref, Alt. Stop)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.848 A=NA C2=0.933
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF068096=NPDC1=FE(12.9=100)

							
A:
NA

							
C2:
PF068096=NPDC1=PD(11.6=93.5)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000049602





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000071387, ENSMUSP00000109921, ENSMUSP00000117773
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr9:137039996-137040067 
LOW PSI
HsaALTD1010860-1/2
(NPDC1)
Human
(hg19)
chr9:139934446-139934447 
Rat
(rn6)
chr3:2630096-2630160 
LOW PSI
RnoALTD0020320-1/2
(Npdc1)
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr17:845513-845514 
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TGAAGATGGCGACTTCACTGT

				
R: 
TGTGGGCCTAGGAGTCACTG

				
Band lengths: 
128-153

			

		

	





	
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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