Special

MmuINT0023946 @ mm9

Intron Retention

Gene
NA
Description
NA
Coordinates
chr2:32059529-32062100:+
Coord C1 exon
chr2:32059529-32059844
Coord A exon
chr2:32059845-32061855
Coord C2 exon
chr2:32061856-32062100
Length
2011 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TTTCCTTCCCTGCTCTCTAGGCT
3' ss Score
10.89
Exon sequences
Seq C1 exon
AAACCCACAATGGGCAGCATGTTCCGCCAGCACTCCGCTGAGGACAAGGAGGACAAGCCACCCCCACGGCAGAAGTTCATCCAGTCAGAGATGTCCGAGGCCGTGGAACGAGCCCGAAAGCGCAGGGAAGAAGAAGAGCGCCGGGCCCGAGAGGAGAGGCTGGCTGCCTGTGCTGCCAAACTCAAGCAGCTAGACCAGAAGTGCAGGCAGGCTCAGAAGGCCAATGAGACCCCGAAGCCAGTGGAAAAGGAAGTCCCCCGATCCCCGGGCATTGAGAAGGTCTCCCCGCCAGAGAATGGGCCTGTTGTCCGCAAAG
Seq A exon
GTGAGAGGCCTCCCTATCCCACAGCTGGGAGCCTTGAACTGTCGACTCCACTTTACTGGCTGTGAGGTAGCCAAACCTGTGGCAGAGACAGGAGCTCTGTGTTAAGGTCAGCCTGGTCTTTGTGGAGTTCCGGGACAGTCAGTACAGAGAGAGCCCCAACCTTAAACACATGCATGCACACATGCACAGAGGTGGGCCTGGGGCCTTATCTGCTCTCAGCTCTGCTTTTCTGAATTTTAATTTGTGCATGCACTCGAGTGTGCATGAGAGAGTGCGCGTGTGCGTGTGTGTATGCATGGTCAGAGGACAGTTTTGTGGAGTCGACTCCTCTCAGAGTTCAGAGGGTTCAGAGGCTGAACTCAGGTCTCTAGGTTTGTGTGCTAAGTGCTTTTACCCGCTCATCCATCTTGCCACCCCATCTTTTTTTTTTTTTTTTTTTTTGGTTTTTCGAGACAGGGTTTCTCTGTATAGCCCTGGCTGTCCTGAACTCACTCTGTAGAGCAGGCTGGCCTCGAACTCAGAAATCCACCTGCTTCTGCCTCCCGAGTGCTGGGATTAAAGGCGTGTGCCACCATGCCTGGCTTTGCCACCCCATCTTAAATTTTTAAAATAGTTGGGTAAATGTCTTACATATCTACAAACCATTTTTCCTTCATCTATAAATGTATCAGGCTGGCAAGGTGGCTCAGCAGGTACACGAGATTGCCTCTCAGCATGTTAGACCGGCGTTGGAGCAGATGTTCTCTGACCTCCGTTACGCTATGATGTGTGTGCGCGTCTATGATTACACAAACACAGACGTAAATTCATTTCAAAATGTGGGGAGTGGAGACATAGCTCAGTGGTTGACCCAGTTTGCTCTCACGGGTGACCTGGGGGTAGTTCCCAGCAGCTCATAGCCATCTCTTAACTCCAGGTTTAGGGGATCTGATGCCCTCTTCTGATCTCATTGGGTACCAGGCACATAATACATGCAGGCAAATGCACCCATGCACATAAATTAAAATAAATAACCCCCCCCAAAAGTTTATATCCCCGCCTGCCAGCCTGTGGAGGCCTGTCAGGTGCCTTACAAGAGGCTTGCGGCATACAGAGACACCATCTTGCTGTTGTTTCTGCTACTGTCCCTTCCTGTACTGACCAGGCAAACGTGTGGCAGAGAGCCTGCGCAAAGGGGAACACTGTTTTACAGGGGATGCAAAGGGGTCTTTCCAGATGTTGGAGTATACGTCTGGCAATAACAATTCCAAAAAGAGTGGCTGCAGTCTGTAACAAGCTGCAGGACTAGAGACGTTCCCCCAGGGAAGCCATCAGCTGTATTCTGTGACAGTCCCCAGTCAACCCTGATAGATTCTTGTTAGCCTCAGCCCTTGTAAACCCCTCCTGCATGTGTTGAGGTATTTGGCCATCTAACGCTACCTGTGCCCTTCTGGAGTCAGGGCTGTGCAAGTGTCCTTATGACGCCCGCTCTCTGCAGCTTGTGTGGAGACTGCTGGCTTGGTGCTTATGGCCACAGCAGTACAGAAACTGCTTTGAACATGCTGTTATTTGGGCCCTGTTGAGGGCATGATCTCACTGGATCCTCCTTCAAGCCCCGTGAAGGACGCATGGTTGCTCTCAGTACTCACAGACTGCGTTGGACAAGCAGGGCCTCAGGCTTCCCACCCAAAGTGGTTGAATCCTGTCTGTTTGGGAGATGAATTTGTAGGTGGTCCCTGAGTTAGGGCTGCTGTCTCCATCCTCAGAGCCCTTTATCAGTCTCACCACAGTGTTGTGCAGTTCTGAGGTCATCAGCTGAATCCTCACCTGTGTTTTTGTTGGGGTAGAGCCTTCTAACTGTGCCTCGTGGGAAATTCATATACCCCAGGAGCACTTGGGGTAGGCAGCTGGGTCCGGGTCAGTGAATGGTCCCCAGTGCAGTCTAGGCAGTAGGCAGAAGCACTCACTGTTTATCACACAGTTGGCCAAGCTCCTGTGAACTCGCTGTGACTTTTCCTTCCCTGCTCTCTAG
Seq C2 exon
GCTCCCCAGAGTTCCCTGTCCAAGAAGCACCCACCATGTTCTTGGAAGAGACACCTGCAACATCCCCAACAGTCGCTCAGAGCAATAGCAGCAGCAGCAGTAGCAGCAGTAGCAGCATCGAGGAGGAAGTCCGGGAGTCCGGGTCCCCTGCACAGGAGTTCAGCAAGTACCAGAAGTCCCTTCCTCCCCGTTTCCAGCGCCAGCAGCAGCAGCAACAGCAGCAACAGCAGCAGCAGCAGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
-Bat2l:NM_001159634:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
NA

							
A:
NA

							
C2:
NA

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000064892f6238A





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000035734, ENSMUSP00000064892, ENSMUSP00000116429
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr9:131465079-131467562 
LOW PSI
HsaINT0016670
(PRRC2B)
Human
(hg19)
chr9:134340466-134342949 
LOW PSI
HsaINT0016670
Rat
(rn6)
chr3:11221775-11223679 
LOW PSI
RnoINT0118621
(Prrc2b)
Cow
(bosTau6)
chr11:101616154-101617711 
LOW PSI
BtaINT0118600
(PRRC2B)
Chicken
(galGal4)
chr17:6195017-6195654 
LOW PSI
GgaINT0123920
(PRRC2B)
Chicken
(galGal3)
chr17:6821960-6822597 
LOW PSI
GgaINT0123920
(PRRC2B)
Zebrafish
(danRer10)
chr5:71260524-71262323 
LOW PSI
DreINT0017293
(PRRC2B)
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
  • 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"