Special

MmuINT0110625 @ mm10

Intron Retention

Gene
ENSMUSG00000049134 | Nrap
Description
nebulin-related anchoring protein [Source:MGI Symbol;Acc:MGI:1098765]
Coordinates
chr19:56379816-56380313:-
Coord C1 exon
chr19:56380206-56380313
Coord A exon
chr19:56379918-56380205
Coord C2 exon
chr19:56379816-56379917
Length
288 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
TTTTTTGTTACTCCAAACAGGTG
3' ss Score
10.15
Exon sequences
Seq C1 exon
GTGAGGTACACAGAAGACGGTGGGCAGCAGAGAGGGAAAGGCAGTTTTCCTGCTATGATCACACCAGCTTATCAGATAGCCAAAAGGGCCACTGAGCTGGCGAGTGAT
Seq A exon
GTAAGTACCTGGGTTGTGTTGTCTTGTTAAGGAGGAAGCAAGAAGTTAATCTGGTTTGGGAGGTCCAACTTCCTGTCTGCTTTTATATATTACTAAGAGGCAAGAACTACCTTTTATTCATAGTTGTCAATCATTTTCCCCATGACAGTGCTACTTCTGTCTATGGCATTCTCCTTAGACCTAAGCAGAGACTGAAGATGCCACAAAGCATTGGTTTTTGTTTTTTGTTTTTTACCTTTTGTGGTTCTTATATTGGGACTCACTGAGTTTTTTTGTTACTCCAAACAG
Seq C2 exon
GTGAGGTACCATCAACAATATCATAGAGAAATGAAGGGAATGGCTAGTCCTGTCGGAGCCGAGGGTGGGATGACAAAGGACTCTGTAGACCGATGTGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049134:ENSMUST00000073536:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.528 A=NA C2=0.866
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0088013=Nebulin=PD(37.9=30.6),PF0088013=Nebulin=PU(55.2=44.4)

							
A:
NA

							
C2:
PF0088013=Nebulin=PD(37.9=32.4)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000073228





     
      









    
Other Inclusion Isoforms:
NA
          









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



Associated events






Other assemblies


mm9




Conservation


Human
(hg38)
chr10:113650142-113650437 
LOW PSI
HsaINT0115730
(NRAP)
Human
(hg19)
chr10:115409901-115410196 
LOW PSI
HsaINT0115730
(NRAP)
Rat
(rn6)
chr1:277170140-277170420 
LOW PSI
RnoINT0103069
(Nrap)
Cow
(bosTau6)
chr26:34403508-34403801 
LOW PSI
BtaINT0103671
(NRAP)
Chicken
(galGal4)
chr6:27028163-27029724 
LOW PSI
GgaINT0041824
(NRAP)
Chicken
(galGal3)
chr6:28952607-28954168 
LOW PSI
GgaINT0041824
(NRAP)
Zebrafish
(danRer10)
chr12:30477947-30478032 
LOW PSI
DreINT0106240
(nrap)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
AGGTACACAGAAGACGGTGGG

				
R: 
TGGCCACATCGGTCTACAGAG

				
Band lengths: 
206-494

			

		

	





	
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
  • Ribosome-engaged transcriptomes of neuronal types
  • 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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