Special

MmuINT0060106 @ mm9

Intron Retention

Gene
ENSMUSG00000021492 | F12
Description
coagulation factor XII (Hageman factor) [Source:MGI Symbol;Acc:MGI:1891012]
Coordinates
chr13:55522010-55522508:-
Coord C1 exon
chr13:55522336-55522508
Coord A exon
chr13:55522233-55522335
Coord C2 exon
chr13:55522010-55522232
Length
103 bp
Sequences
Splice sites
5' ss Seq
ATGGTTAGG
5' ss Score
3.39
3' ss Seq
GCCAGTCTCTCCTTCCACAGACT
3' ss Score
8.72
Exon sequences
Seq C1 exon
GAACCCAGATAATGACACACGTCCATGGTGCTTCGTCTGGAGTGGCGACAGGCTGAGCTGGGACTATTGCGGCCTGGAGCAGTGCCAGACGCCAACGTTTGCACCTCTAGTTGTCCCTGAGAGTCAGGAGGAGTCCCCGTCCCAGGCACCATCTCTGTCCCATGCACCAAATG
Seq A exon
GTTAGGCAGAGGAGGGGGTCCCGGCGCAGAGGACATGGGTCTCTCTTATTCCTGGCAGCCCGTGCCAGGTATCCATGGCCTCAGCCAGTCTCTCCTTCCACAG
Seq C2 exon
ACTCGACCGATCATCAGACTTCTCTGTCCAAGACCAACACGATGGGCTGCGGACAGAGGTTCCGCAAGGGACTGTCCTCGTTCATGCGCGTGGTGGGCGGACTAGTGGCTCTGCCTGGGTCGCACCCCTACATCGCTGCACTGTACTGGGGTAACAACTTCTGCGCGGGCAGTCTCATCGCCCCCTGTTGGGTGCTGACCGCGGCTCACTGCCTGCAGAATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021492-F12:NM_021489:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.339 A=NA C2=0.133
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0005113=Kringle=PD(35.4=47.5)

							
A:
NA

							
C2:
PF0008921=Trypsin=PU(18.6=58.7)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000021948





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr5:177404091-177404195 
ALTERNATIVE
HsaINT0059132
(F12)
Human
(hg19)
chr5:176831092-176831196 
ALTERNATIVE
HsaINT0059132
(F12)
Rat
(rn6)
chr17:9741379-9741480 
ALTERNATIVE
RnoINT0057483
(F12)
Cow
(bosTau6)
chr7:40260098-40260195 
LOW PSI
BtaINT0058887
(F12)
Chicken
(galGal4)
chr13:9453546-9453647 
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GCCAACGTTTGCACCTCTAGT

				
R: 
CGCAGAAGTTGTTACCCCAGT

				
Band lengths: 
248-351

			

		

	





	
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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