Special

MmuEX6097710 @ mm9

Exon Skipping

Gene
ENSMUSG00000028591 | Pramef12
Description
PRAME family member 12 [Source:MGI Symbol;Acc:MGI:1924882]
Coordinates
chr4:143981577-143985905:-
Coord C1 exon
chr4:143985583-143985905
Coord A exon
chr4:143984478-143985062
Coord C2 exon
chr4:143981577-143983020
Length
585 bp
Sequences
Splice sites
3' ss Seq
ACTTCTACTTTCTCCCACAGGAA
3' ss Score
12.41
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
Exon sequences
Seq C1 exon
GATCATCAGTCTCCCTACAGATCTGTGAAGATGAGCTTGCGTGCCACACCCACACTCCTACAGCTCGCAATGCAAAGCCTGCTGAGGGATGAGGCCTTGGCCATCTCTGCTCTGCAGGACCTGCCCATGGAGCTCCTCCCACCACTCTTCAAAGATGCCATCACTCACAAACGACTTAACATCCTGAGGAAGATGGTGCAGGTCTGGCCTTTTCCCTGTCTCCCGCTGGGTGGTCTGATGAAGATGAAGACACCATACCTGGATATCTTGCAAACCGTACTGGATGGGGTTGATGCACTGCTTGACCAGAATACTCACCCCAG
Seq A exon
GAATTACAAACTGCAAGTTCTGGATTTGCGGGCTTTGCACAAGGACTTCTGGACCGTATGGGCTGGAGATACGACAACATCTTGCGCTCCAGGGGTCAAGTGTAGGAGAAAAATACAAAAGAGAGGTCCAAAGATAGAAGCCAAGCAAAACTCATTGAAAGTGTTTATAGACCTGTACCTCAAACCAAGAGCCTTGGATACATGCCTGTCCTATGTCTTCCTGTGGGCGAGAGAGAGAAAAGCTTTGTTGCAGCTTGGCTGTAAGAAGCTGAAGATCAACACAGTAGCTATCCAGAATATTGTGAAGATTCTGGAAATGCTAGACCTGGACTATGTGGAGGAAGTAGAAGTATGTTGTACCTGGAAGCTGTCTACTCTGGCCATCTTTGCTCCTTACCTGGGCCAAATGAAAAATCTTCTCTCGATCATTCTCTCTCACATTCATGTGCCTGCCTCTATTACCCCAGAGGAGGAGAAGCAGCTGGTCAGCCAGTTCACCTCTCAGTTTTCCAACCTGCAGTACCTCCAGGACCTCTCCCTGGACTCCATCGACTTCCTCAAAGGTCAAATGGACCAGTTGTTCAG
Seq C2 exon
GTGCCTGGAGGTCCCCTTGGAGATCCTCTCTATTACTGATTCCAAGATTTCAGAATCAGACTTGCAGTCCCTGTCCCAGTGTCCAGGCATCCGACAGCTCAAACACCTGAACCTGAGTGGTGTCATTCTGACCGACATAAGTCCTGAGCCTCTTCGAGTCCTGCTGGAGAGAGTTGCAGCCACCCTGAAGACCCTGGACTTGGAGAACTGTATGATTATGGACTCCCAGCTTGATGTCCTCTTGCCTGCCCTGAGCCAATGTGCTCAGCTTATCATGTTCAACTACTTAAGGAACCCCATCTCAGTGTCTATTCTGGAGCGCCTGCTCCACCACACCTCCGGGCTGAACTATTTAAGCTTGGAGATGTATTCTACCCCTTGGGAGATTTATGGTGCCCAGGGTGCTTCCTACCATAAGAGGCTAGAACAGCTTAGAGAGGAGCTGAGCAAGGCGATGCAGCATCTAGAACACAACAGAACGGTCTGGTTCAGCGTCGCGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028591-'7-4,'7-3,9-4=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
Alternative protein isoforms (Ref)





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NO

							
C2:
PF127992=LRR_4=WD(100=27.3)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000030326





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000119614
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr1:12775543-12776118 
HIGH PSI
HsaEX6028564
(PRAMEF12)
Human
(hg19)
chr1:12835686-12836261 
HsaEX6028564
(PRAMEF12)
Rat
(rn6)
chr5:162441550-162442116 
HIGH PSI
RnoEX6024348
(Pramef17)
Cow
(bosTau6)
chr16:55720201-55720758 
BtaEX6069828
([1])
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TGAGGAAGATGGTGCAGGTCT

				
R: 
TCCAAGTCCAGGGTCTTCAGG

				
Band lengths: 
343-928

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]










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