Special

HsaINT0186002 @ hg19

Intron Retention

Gene
ENSG00000147130 | ZMYM3
Description
zinc finger, MYM-type 3 [Source:HGNC Symbol;Acc:13054]
Coordinates
chrX:70467195-70467756:-
Coord C1 exon
chrX:70467584-70467756
Coord A exon
chrX:70467361-70467583
Coord C2 exon
chrX:70467195-70467360
Length
223 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CATCCTTTTGACATCCTCAGGCT
3' ss Score
8.06
Exon sequences
Seq C1 exon
GCTGTGTGCTGCTGTACAAACAGGACTTCACTAAGAAGCTGGGCTTGTGCTGTATCACTTGTACTTACTGCTCCCAGACCTGCCAGCGCGGAGTCACCGAGCAACTGGATGGCAGCACCTGGGACTTCTGCAGTGAGGACTGTAAGAGCAAGTACCTGCTGTGGTACTGCAAG
Seq A exon
GTAAGGAGGGTCAGCATGCGAGCGAGGCGGGAAAGAGGGCAGTGGGGAGCACGGGCTGTGGTACTGAGCTCGGGGTGTGGACAGATCTCCAGGGAGGGCAGCCAGCCTTCCATCTCTAAGCTGGCCCGATCTCCAAGGGGAGGAGCATGGCTTATCCCGGGGGAAAGAAAGGGCCCAACGCATTTTAGGGAGGCAGGTCTGACCATCCTTTTGACATCCTCAG
Seq C2 exon
GCTGCCCGGTGCCATGCGTGTAAGCGCCAGGGGAAGCTGCTGGAGACCATCCACTGGCGTGGGCAGATCCGTCATTTCTGCAACCAGCAGTGTCTTCTGCGTTTCTATAGCCAGCAGAACCAACCCAACCTGGATACCCAGAGTGGGCCCGAGAGCCTCCTGAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000147130-ZMYM3:NM_001171162:12
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.258
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF064679=zf-FCS=PD(12.8=8.6),PF064679=zf-FCS=WD(100=69.0),PF064679=zf-FCS=PU(10.0=6.9)

							
A:
NA

							
C2:
PF064679=zf-FCS=PD(85.0=60.7)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSP00000363100





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSP00000322845, ENSP00000343909, ENSP00000363096, ENSP00000363110
  



Associated events






Other assemblies


hg38




Conservation


Mouse
(mm10)
chrX:101413278-101413488 
ALTERNATIVE
MmuINT0180485
(Zmym3)
Mouse
(mm9)
chrX:98608617-98608827 
ALTERNATIVE
MmuINT0180485
(Zmym3)
Rat
(rn6)
chrX:71307904-71308109 
ALTERNATIVE
RnoINT0169136
(Zmym3)
Cow
(bosTau6)
chrX:84695977-84696176 
LOW PSI
BtaINT0164746
(ZMYM3)
Chicken
(galGal4)
chr4:2279860-2280282 
ALTERNATIVE
GgaINT0075048
(ZMYM3)
Chicken
(galGal3)
chr4:2288860-2289282 
ALTERNATIVE
GgaINT0075048
(ZMYM3)
Zebrafish
(danRer10)
chr9:21629628-21632383 
LOW PSI
DreINT0181004
(zmym2)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GCTGTGTGCTGCTGTACAAAC

				
R: 
CAGGTTGGGTTGGTTCTGCTG

				
Band lengths: 
305-528

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Autistic and control brains






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