Special

MmuINT0098794 @ mm9

Intron Retention

Gene
ENSMUSG00000040987 | Mill2
Description
MHC I like leukocyte 2 [Source:MGI Symbol;Acc:MGI:2179989]
Coordinates
chr7:19441289-19442030:+
Coord C1 exon
chr7:19441289-19441552
Coord A exon
chr7:19441553-19441754
Coord C2 exon
chr7:19441755-19442030
Length
202 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TCCTGCCTGGGGCGGGCCAGGCC
3' ss Score
1.63
Exon sequences
Seq C1 exon
GAACCCACACTCTGCGCTATAATGTCAGAGCCCATTCTCTGGAGGGGTCTGAGAAGACCCAGCTCCTGGTCCTAATATACGTAGATGAAGAGCTCTTCCTGAAATACAATGGAGACAGCAGGGAGACAGAGCCCTTGGGATGCTGGATTAAGGGCCATGGGGGAAATGAGACCTGTGCAAGAGAGACTAACAATCTGTTGAAGGTGGAAGAGAAACTCAGGGGGATGATGGCTGAGGTTATAAACCAGAAGAGTCAGGAGGAAG
Seq A exon
GTAAGTGTGGAGAGCCAGAGGTACACAAATCCCATCTATGATCCCTAAGCCATGATTCTGGGCAGGGCACAGCCAAACTGAATTGAGTAAAGCAACAATGTTTTCAAGGGGCAGAGCACTGGATAGTCCCTTCTAGGCTGAAGTCTCAGGGAGTGAGGTCCAGGGACAAGAAGGTAACGAGTTCCTGCCTGGGGCGGGCCAG
Seq C2 exon
GCCTTCACACTCTCCAGGCAACTTTGGGCTGTGAGCTTCTGAGTAATGGGAGCACTAGAGGCTTCTGGCACCTGGGCTATGATGGGCAGAACTTCCTCACCTTTGACCAGAAGACTCTCACGTGGACAGTGGATGGACCCTCCACCCAGCAGAACAAGATGTTCTGGAAGACACATGCACCCAGAGCTGATCTAGTTAAGACATTCTTGGATGATATATGTCCTGCTCACCTCCAGAGATACCTCGCTTCCTTGAGAAACGGTCTGCAGGATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040987-Mill2:NM_153760:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.071 A=NA C2=0.032
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0012913=MHC_I=PU(49.7=98.9),PF074136=Herpes_UL37_2=PU(22.6=39.3)

							
A:
NA

							
C2:
PF0012913=MHC_I=PD(49.7=94.6),PF074136=Herpes_UL37_2=FE(59.4=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000072223





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000072223f6011A, ENSMUSP00000072246
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr6:31378593-31378848 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr23:27726500-27726747 
ALTERNATIVE
BtaINT0002118
([1])
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr16:330891-331135 
GgaINT0123409
(F1NKF8_CHICK)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
AAACTCAGGGGGATGATGGCT

				
R: 
ATCTCTGGAGGTGAGCAGGAC

				
Band lengths: 
292-494

			

		

	





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






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