Special

MmuINT0180501 @ mm10

Intron Retention

Gene
ENSMUSG00000031310 | Zmym3
Description
zinc finger, MYM-type 3 [Source:MGI Symbol;Acc:MGI:1927231]
Coordinates
chrX:101414422-101414898:-
Coord C1 exon
chrX:101414748-101414898
Coord A exon
chrX:101414538-101414747
Coord C2 exon
chrX:101414422-101414537
Length
210 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
3' ss Seq
TCTTTCTTTCTATGCCCCAGGCC
3' ss Score
9.58
Exon sequences
Seq C1 exon
AAAAACACACGTGTGTACCCATGTGTCTGGTGCAAGACCCTGTGTAAGAACTTTGAGATGCTATCACATGTGGATCGTAATGGCAAGACCAGCTTGTTCTGTTCCCTGTGCTGTACCACTTCTTACAAAGTGAAGCAGGCAGGGCTCACTG
Seq A exon
GTAGGTGCAAAGCCCTCTTCTCTGAGATCCCTGCTGGCCTTCCTTCTGCTTCCCATATTTCCCTCTTGTAGAGTAATTTCTGCTGCCCAACCTCGGCCCCAGCCACATCTTCCCATGGACTTTCTATTCCATCTCTGCCCTACCTTACACCTTCTATGTGCTCTCTCTTCCTCTTTTCTCTCTCTTTCTCTCTTTCTTTCTATGCCCCAG
Seq C2 exon
GCCCTCCCCGACCCTGCAGCTTCTGCCGCCGCAGCCTCTCTGACCCTTGTTACTACAACAAAGTTGATCGCACAGTCTACCAGTTCTGCAGCCCCAGCTGCTGGACCAAGTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031310:ENSMUST00000063577:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF064679=zf-FCS=PD(95.3=80.4),PF064679=zf-FCS=PU(7.3=5.9)

							
A:
NA

							
C2:
PF064679=zf-FCS=PD(90.2=94.9)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000068197





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000112497, ENSMUSP00000113049, ENSMUSP00000113225
  



Associated events






Other assemblies


mm9




Conservation


Human
(hg38)
chrX:71248802-71249018 
LOW PSI
HsaINT0186014
(ZMYM3)
Human
(hg19)
chrX:70468652-70468868 
LOW PSI
HsaINT0186014
(ZMYM3)
Rat
(rn6)
chrX:71309159-71309367 
ALTERNATIVE
RnoINT0169154
(Zmym3)
Cow
(bosTau6)
chrX:84694731-84694946 
LOW PSI
BtaINT0164765
(ZMYM3)
Chicken
(galGal4)
chr4:2275842-2276399 
ALTERNATIVE
GgaINT0075044
(ZMYM3)
Chicken
(galGal3)
chr4:2284842-2285399 
LOW PSI
GgaINT0075044
(ZMYM3)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CACACGTGTGTACCCATGTGT

				
R: 
GGAACTTGGTCCAGCAGCTG

				
Band lengths: 
260-470

			

		

	





	
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
  • Ribosome-engaged transcriptomes of neuronal types
  • Neural differentiation time course
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types





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