Special

MmuINT0110617 @ mm9

Intron Retention

Gene
ENSMUSG00000049134 | Nrap
Description
nebulin-related anchoring protein [Source:MGI Symbol;Acc:MGI:1098765]
Coordinates
chr19:56398378-56401789:-
Coord C1 exon
chr19:56401685-56401789
Coord A exon
chr19:56398486-56401684
Coord C2 exon
chr19:56398378-56398485
Length
3199 bp
Sequences
Splice sites
5' ss Seq
GACGTAAGT
5' ss Score
10.93
3' ss Seq
GTTCTTGTTCTCTCCACCAGAAA
3' ss Score
9.02
Exon sequences
Seq C1 exon
CGCTTGTACAGGTTGGGAGATGCAGCCTCCCTGCATAGATACACCCCAATCCCAGACCACCCGGATTTCACCCGAGCCCGCATGAACGCAATGCATTTGAGTGAC
Seq A exon
GTAAGTAGCCGTAAGCGGGCACAGGTGCTGTGTGTCTGCTTCTGTAACACTTTCAGCCCCCAATTGATTTATTTATTGGCCTTTTTTTTAAGTCTAAGAAGGAGGACATAAAAATGAAAAAAACAAAACAAAACAAACCCTGATCCCAGAGCAGGACAAACCGTTCATGTGACTTCCCATCATTCTCCTCGCCGGGCCTTGGTTTCCTTACCTGTAAACCAGGAAGAAATGGAGCTGATGTAAATGGGAGTCCCTTGTAGCTCTAACACTCTGGTTCTAGGGGAGGCTTCAAAGGCCTTGGTCATGTGCCTGGTAACAGTCAGGGGTACGGTCCCAGGCGCCGACAGGTGTAGACACACCTGCTCTGTTAATTTCTTGGACGCCTCGGACATTCAGAGACATCTGGCCTTTGAGATGGAATGATACCATCTTACTCTGCAGTTTGAAAAGATGTTCCCGATGTAGCCGGCTCCTTTGTGCATGGATCCGTGCCTGCCAACACTCCAGCTTCCCTTGGATATCTGCCCTTTGCATGCATTCACCAACACGCTGTTTCCTAAACTCAGGCTTGTTGTTGGCAGGGGTTGGAGGCCCCTGGTTGTAAGAGAATAGGCAGCCGCTCAGCCAGCGATGCTGTGATCCTCAGATGACAGGTAAAGAAACAGGGCAATCAAAAGACACCATCAGGTCGGAATAACACAGGCTGAGTGTGTCGGCCTGGGGCAGCGAGCGGCCTCCCGGCGTCCACACATTCTTCCTTGCCTGGCCTGGCCATTGTGTCCTGGGGCTGCGTGTGGATGACAGCTGCTGCTGTTCACCCCAGAGGTGGCTGCCTTGCAGGGGTTGGAGAGAGGCGCCTTCTAGTTAGCGTGTGTGTGAGTTTGTTGCAGTTGTAAAGCCCTGTGGGATCCCCGCACGGTGAATGCTCTCGTGCTTTGTAAATATGAGTTATTACAACCATTTGATGCTTTTGAGGAAACGAGCGAGGGATAATTTTAGAAAGCAGCTCTGGTGGGCTGGCCTCCATCTGGGGAAGCTGGACCGCCCCCTCTGCAGAGCTGGTGGAAGGTCCGGCTCATTAATTCCCAAGGATGGGGAGGCCAGATATCTGCTGGAGTAACTCTCCGAGGACCTCAGCCCAAAGACTGGGAGGAAGGTACTAGTCCATGAGGGTCCCAGCTCAAGGAGGACAGCCACCCGGGGATGGCAAGAACAGTCAGTGTGCTTGCTCTCACAAGAGGGAGGGGACAGCCTGCAGAGTCCCGGAGCTGAAATTAGCCACCAGAGCTCATGGGGTGTGGAGAACCTCGTTTGAAAGAGCACTTCTTCAGGGGCGTGTGGAATGCGCACAATTGGATCAAGTGCTCTGTGAGGAGGATGTGGAGGCAGAGTGACCTTCGTGAGCAAAGAAAGCCATTGAGATGTGCAAGGCAGCCGAAATAACTCAAAAAATCAAATGACTCTAATGTGTGAGGACGAGGACAAAACTGTGATCAAGAAGAGGGACGCCCAGGGTTCCGAATCAAAGTGTGCCGCGCCTGCGGAATGTAAAGAAAGTCAGCAGCAAAGCAGAGACCTCAGCAGTACAGAAAACACAGGAGGACGCCGCCATAAGCAAGCAGTGGTGGGGGGGGTGGGGTGGGGGGGATATCTGGAGAAAGAAAACTCACACACCGGGGACAACCCCAGTGCAGGCCACTGTGTCTACAGGTGTCCCCGAGTTACCCAAGGCTGGGGTGCACAGGTCACTGACCCAGCTTGGTGTTGGACTTGAAGTTGGCGGAAAGCTTTGTGTCATTAACTGGCCTAGATCTGGGGTAGAGGCTTGCATTAGGAAAACACTGGGTCCCCTCTCATAGAGTGTTTGGGGTTCTTGTTACCACTTCCCACTCAGACATCTTTGGAAGCAGACTGCTAGAAAGGGATTGTTGGTGGGTTATTGTCTGACTATTCCTTCTCTTGAATATCTTCCGGTCCTCACTGTTAATCTAGATAGTGACCCAGTCCATGGAGGCAGTTGGCTCTGGCTGTGACCGCAGTTAGGTGGTTCCCATTGCAAGGCTTGGTTCTGTGTGTTCTCAGGACTGGTATATTCAGCTCATGTGTTGTTTGTTGGAGTTGGAGGTCAAGGTGGTGTTATCATGGCAGTCGAAGGGAGATGATATCTGCCCTGCTTGGCCCAGGCACTTCCACTCCTTTCTGTGCCAGGCCCAGAATAAAAGTGGGCGGAGCACTTTGCTTTCATCTGCCTGTCTTCCCTTGTTTAACTCCCTAAGTCTTTGCAGAACAGAGAGCTGGTCCTGACTTCCACTTCCAGGGAACAAAGGGAAGGCTCTCAAGGGGCCCTTGACCTATGTCAGCTCTCAGAATGAGTGAGCAACCATCACAGTCTGGGGCTGGCACTTTGTCACCTGCGGGTGCTGTGACTGTCCTGCTGTCCCGTTTCTCCAAAGCTGAATAGGGGAGAGCATCCATTGGGGCTCTCCTGAAAACTCCTTTCATGGAGGAATTGCCTTATCTTGGAAAGAAATGGTTAGCTACAGGAGGGCAAGAAGAGTTTGGCACCTCCATAGGGGGTGTGGCTGTGTATCAGGCCTAAGAGGATGTGATTACAGACCCTACGGGGGTGTGGGTCAACTTGAAAAGGGGGAAAAGAGGAAAGAAGAAGCTAGGAACTGTGTGGGTCGGTCAGGTACCCTGTCCGGTTCTTGACAATCCATTTAATTCAGATGAAAGCTAAGGCCTCCCTGCATGAGTCTGGAGTGCGGGAGAGATATACTGTGCTTCCTAGTGGTGGGGTGAGGTATCACAGCCAGGCTGAATCCCCAATCTCAGGGACCCAGAGAGGAGCACTTCCAGTGCGTGGGAGCACCTTGGTTCTGGAGATCCAGGTTCTGGGGTCAGGAACCTGAAAGGGTGAGACAGAGCGGGGATCCAGACACAGAACAGATGGTGCAAGGCTCTGGAGACTAGCAGGGTGTGGCAAGCGAGCTAGACTCACAGACCACAACTCCTAAACAGCAGAAACTCTTTATGACCAGTTCCATCAATCCTAGAGTGGGGAAGTAGTCGTCCAGCCTCAAAAGGGCCAGCGGTCCCAGATATCCCTGGGGCCTGATTCCTGCTGAGACCAGCTGAGACCAAATAGCCTGCAGGTAACGGTTGTTTCTCACCCAAGTGTTCTTGTTCTCTCCACCAG
Seq C2 exon
AAAGTCTACAGGAATGCCTGGGAGCAGAGCCGGGCTGGTGGCTATGACTTCAGGCTGGATGCTATCCCATTCCAGACTGCACGGGTGTCCAGGGATATCGCCAGTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049134-Nrap:NM_198059:37
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.086 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0088013=Nebulin=PU(55.2=45.7)

							
A:
NA

							
C2:
PF0088013=Nebulin=PD(37.9=30.6),PF0088013=Nebulin=PU(55.2=44.4)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000073228





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000048364, ENSMUSP00000093640, ENSMUSP00000132582
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr10:113592302-113595622 
ALTERNATIVE
HsaINT0115723
(NRAP)
Human
(hg19)
chr10:115352061-115355381 
ALTERNATIVE
HsaINT0115723
(NRAP)
Rat
(rn6)
chr1:277107707-277110756 
LOW PSI
RnoINT0103061
(Nrap)
Cow
(bosTau6)
chr26:34343472-34347037 
ALTERNATIVE
BtaINT0103664
(NRAP)
Chicken
(galGal4)
chr6:26993709-26995284 
LOW PSI
GgaINT0041855
(NRAP)
Chicken
(galGal3)
chr6:28916937-28918512 
LOW PSI
GgaINT0041855
(NRAP)
Zebrafish
(danRer10)
chr12:30496515-30496658 
LOW PSI
DreINT0106233
(nrap)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
No suggested primer sequences

				
R: 
No suggested primer sequences

				
Band lengths: 

			

		

	





	
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






Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"