Special

MmuINT0180500 @ mm9

Intron Retention

Gene
ENSMUSG00000031310 | Zmym3
Description
zinc finger, MYM-type 3 [Source:MGI Symbol;Acc:MGI:1927231]
Coordinates
chrX:98610527-98611277:-
Coord C1 exon
chrX:98611100-98611277
Coord A exon
chrX:98610746-98611099
Coord C2 exon
chrX:98610527-98610745
Length
354 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TGTATATATATGTGTGGCAGGTT
3' ss Score
6.23
Exon sequences
Seq C1 exon
GGAGATCTGGAACACCAAGGACTCAGTTGTGGTACAGACTGGTCCAGGAGGCTCCTTCCATGAGTTCTGCACATCTGTCTGTCTCTCTCTCTATGAGGCCCAGCAGCAGCGTCCAATCCCCCAGTCTGGGGATCCTGCCGATGCCACTCGCTGCAGCATATGCCAGAAGACTGGAGAG
Seq A exon
GTGAGGGTACTCACCACAGGCTAACTTAGGAGCCTGCTGGCTCTGACCCACCCGCCCCTCTAGTTCTTGAGCTGCAGGGGCTGAACCCTGGGAGAAAGGGATTTGGGAGGAAAAGGTAGCTAATGTGAGGGAGTAAATTCAAGGCTAGAGCTTCTCCCAGATGTATGCAGCTAACCTCCTTACCTCCCAGGATCTCGTCATCAAGTCTACAGCCTGAAGCACAGGTTGGGGGGTCCTAGGCCCATTGTCTGCTGTAAAGGTCTAGGGTGAGGTGGGAGTCCGGTCCTTGCATTGATTGGGGTGGGCGGTGGTGGCCTGGCCTCAGCTCAGGGTGTGTATATATATGTGTGGCAG
Seq C2 exon
GTTCTTCATGAGGTCAGCAATGGCAGCGTGGTACACCGACTCTGCAGCGATTCTTGCTTCTCCAAATTCCGAGCCAACAAGGGACTGAAAACCAACTGTTGTGACCAGTGTGGGGCTTACATCTATGCCAGGCCTGGGGGCCTTGGCCCAGAGCTCCTGTTTCATGATGGTCAACAAAAGCGGTTTTGCAACACAACGTGCTTGGGGGCATACAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031310-Zmym3:NM_001177985:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.165 A=NA C2=0.019
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF064679=zf-FCS=PD(68.9=51.7),PF064679=zf-FCS=PU(38.5=25.0)

							
A:
NA

							
C2:
PF064679=zf-FCS=PD(56.4=30.1),PF064679=zf-FCS=WD(100=63.0),PF064679=zf-FCS=PU(0.1=0.0)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000068197





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000112399, ENSMUSP00000112475, ENSMUSP00000112497, ENSMUSP00000113049, ENSMUSP00000113225, ENSMUSP00000113462, ENSMUSP00000114005, ENSMUSP00000114118
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chrX:71249680-71250025 
ALTERNATIVE
HsaINT1047273
(ZMYM3)
Human
(hg19)
chrX:70469530-70469875 
Rat
(rn6)
chrX:71310027-71310365 
ALTERNATIVE
RnoINT0169152
(Zmym3)
Cow
(bosTau6)
chrX:84693716-84694070 
ALTERNATIVE
BtaINT0164763
(ZMYM3)
Chicken
(galGal4)
chr4:2274772-2274894 
LOW PSI
GgaINT0075042
(ZMYM3)
Chicken
(galGal3)
chr4:2283772-2283894 
LOW PSI
GgaINT0075042
(ZMYM3)
Zebrafish
(danRer10)
chr9:21637241-21638502 
ALTERNATIVE
DreINT0181019
(zmym2)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TGTGGTACAGACTGGTCCAGG

				
R: 
AGCACGTTGTGTTGCAAAACC

				
Band lengths: 
353-707

			

		

	





	
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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