Special

MmuINT0006493 @ mm9

Intron Retention

Gene
ENSMUSG00000030111 | A2m
Description
alpha-2-macroglobulin [Source:MGI Symbol;Acc:MGI:2449119]
Coordinates
chr6:121628537-121629256:+
Coord C1 exon
chr6:121628537-121628578
Coord A exon
chr6:121628579-121629109
Coord C2 exon
chr6:121629110-121629256
Length
531 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TCTTCTTTCCACTACCACAGGTT
3' ss Score
9.72
Exon sequences
Seq C1 exon
ATGAGTTTGCAGTTGCAAAATACAGTGCTCCCTGCAGTGCAG
Seq A exon
GTAAGCAGTTCACATTCTTGTTTTGTTTTGTTTTGTTTCGTTTCTGTTTTTGTTTTTTGAGACAGGGTTTCTCTGTGTAGCCCTGGCTATCCTGGAACTCACTTTGTAGATGAGGCTGATCTTGAACTCAGAAATCCACCTACCTCTGCCTCCCTAGTGCTGGGATTAAAGGCGTGTACCACCACTGCCCGGCAGTAGCTCACATTCTTTTAAAGGGTAACCAGAATTCCTCTAGCTTGTGTCCCAGATTTCCTCCTCCATAAAATTCTAGGTAGATCTTCTTAGGAATCATTTTGCTTGGACTGTGTGTTATTATAGAAGAGTGTATGCTTTGGAGAGGTGTGATGCCTCTTGAACCCTCAGCGAGTTTGCTGCACAGCTTATTGGGTCATTAGCTGCAGTGGGTCTCAGCTCCTCCTGCATCCATTGGGTTGTCTTGGATACCATGCTGTTCAAACTTAGAGGAATATATATCGTTTGCTCATGGAAACCCAAGCCTATCTTAATTTTCTCTTCTTTCCACTACCACAG
Seq C2 exon
GTTATGGAAATGCCTGAAGACACTGTGAATAAGAAGTGTTTCACCAGAGCCCTGTTCTTAGGACTTCTCAAGAAAAAGTGGTTTTTGTATTTCCAGAGATTTGATAAATAAAGCATTCTTTCATATCTATCCATCACCATTCCTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030111-A2m:NM_175628:35
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF076779=A2M_recep=PD(8.0=46.7)

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000032203





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr12:9067840-9068182 
ALTERNATIVE
HsaINT1000007
(A2M)
Human
(hg19)
chr12:9220436-9220778 
Rat
(rn6)
chr4:154472567-154472907 
Cow
(bosTau6)
chr5:101346084-101346417 
LOW PSI
BtaINT0010536
(A2M)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr1:79366061-79366791 
LOW PSI
GgaINT0103713
([1])
Zebrafish
(danRer10)
No conservation detected
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






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