Special

MmuINT0110596 @ mm9

Intron Retention

Gene
ENSMUSG00000049134 | Nrap
Description
nebulin-related anchoring protein [Source:MGI Symbol;Acc:MGI:1098765]
Coordinates
chr19:56435602-56436341:-
Coord C1 exon
chr19:56436144-56436341
Coord A exon
chr19:56435707-56436143
Coord C2 exon
chr19:56435602-56435706
Length
437 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TGGTGACATTTCTCCTGCAGCTG
3' ss Score
8.78
Exon sequences
Seq C1 exon
GTTGAATATAAGAAAGGGTTTGAGGAGAGTAAAACCCACTTTAACCTGCCCATGGACATGGTGAACCTCAGGCACGCTAAGAAGGCCCAAGCTCTTGCCAGTGACCTTGACTACAGAAAGAAACTGCATGACTACACGGTGCTGCCTGAAGATATGAAAACTCAGTGGGCCAAGAAAGCCTACGGGCTGCAGAGCGAG
Seq A exon
GTGAGTGGCCCAGCACCTTGCCCTCAGATGAGCTCTCAGAGTGATTTGAACCTGTGAGTGGGTCCATTGTATAACTCAGAGAAGATCTATAGCTGTAACAGGTCCAGGATAGACAGGTGTAGAGAGACAAAGAGCCAAGACAGTGTAAACTCAGGATGGGGCGGGGCTTGGAGCTAGTGTGAAAGTCAAGATGGGCTGGCAACAAGAGCCAAGGAGAAACATCTTGGAAACATTGGTCAATTTTGGCAAGGTCAAAGTGTTTCAGCAGGAAGGTGGAATGTGTTCATTTCCATCGCAGGGAGCACCCAGTGGCCTTCCCTCCCTAAGGGAGACAAATGGGGAGTGGCTTTCTGGGAAGACATTTTGGATGTTCCCATGAACTTGGTTATGTCTGTCTGTGTATGTCAGATTAGAGCTTGGTGACATTTCTCCTGCAG
Seq C2 exon
CTGCAGTACAAAGCTGACCTGGCATGGATGAGGGGAGTCGGGTGGCTGACAGAGGGGAGTCTCAACCTGGAACAGGCGAAGAAGGCTGGACAGCTCATCAGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049134-Nrap:NM_198059:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.008 A=NA C2=0.045
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0088013=Nebulin=PD(39.3=16.7),PF0088013=Nebulin=WD(100=39.4),PF0088013=Nebulin=PU(55.2=24.2)

							
A:
NA

							
C2:
PF0088013=Nebulin=PD(37.9=31.4),PF0088013=Nebulin=PU(57.1=45.7)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000073228





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000048364, ENSMUSP00000093640, ENSMUSP00000125889, ENSMUSP00000128196, ENSMUSP00000132582
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr10:113629022-113629587 
LOW PSI
HsaINT0115702
(NRAP)
Human
(hg19)
chr10:115388781-115389346 
LOW PSI
HsaINT0115702
(NRAP)
Rat
(rn6)
chr1:277146992-277147320 
LOW PSI
RnoINT0103040
(Nrap)
Cow
(bosTau6)
chr26:34381845-34382432 
LOW PSI
BtaINT0103643
(NRAP)
Chicken
(galGal4)
chr6:27015307-27015529 
LOW PSI
GgaINT0041835
(NRAP)
Chicken
(galGal3)
chr6:28939751-28939973 
LOW PSI
GgaINT0041835
(NRAP)
Zebrafish
(danRer10)
chr12:30486209-30486510 
LOW PSI
DreINT0106213
(nrap)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GTTGAATATAAGAAAGGGTTTGAGGA

				
R: 
CTCGCTGATGAGCTGTCCAG

				
Band lengths: 
303-740

			

		

	





	
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
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






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