Special

MmuINT0180460 @ mm9

Intron Retention

Gene
ENSMUSG00000021945 | Zmym2
Description
zinc finger, MYM-type 2 [Source:MGI Symbol;Acc:MGI:1923257]
Coordinates
chr14:57547024-57551098:+
Coord C1 exon
chr14:57547024-57547174
Coord A exon
chr14:57547175-57550925
Coord C2 exon
chr14:57550926-57551098
Length
3751 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAGT
5' ss Score
3.24
3' ss Seq
AAACATACAACATTTTTCAGGCT
3' ss Score
3.58
Exon sequences
Seq C1 exon
AACAAAGTGCATCAGTTCTGCAGCAAAACTTGCTCAGATGACTATAAGAAGTTGCATTGCATAGTTACATATTGCGAATACTGCCAAGAGGAGAAGACTCTGCATGAAACAGTAAATTTCTCTGGCGTTAAGAGACCTTTCTGTAGTGAAG
Seq A exon
GCAAGTGTGTATACAGCATTGTTCATAACTTTTTATATATATATATGTTTTTTGCTAAATTATTTAAAGAGTATATAATTACAGACGTCCAGAATAGGTACACAATTTTAATATTGACTTAAGAAAATTTAGTTTACTTTTATACTGAATCTTTTTTTGTTGTTTTACATGTATTTTTAGACTTCTGGACCTCAAGGTTTCACCTCTAGAAATTTGGGATAAAATGAAAGGAAGCACTGCCATCCCACGCTATTTATTACTAGAGTTGTGCATTGTAGCCTGAAGGTTGATTTTGCAGGAGCAGGCAGAGTGTTTTGCATTCACTCCAGTTCCCTACCCGCTTGCAGCTATAGAGTTTTTTAGTATTTAGATTGATCATCACTGACCTCAAAATCTGAAACCCATGATACTCCAGAAGTTTCAGGTTTTGGATTTTCAGGTTAATGAAGTCACTAAAGTTGATGTGACTGCTGAAAATAAATACCCTACAAGAAGCCCCCAAACCTGAAATGTCTCTGACCTAAAGCATTTTAGTGTCATTGATGTAGAGGTGGGAGGACTTATAGTGACAAGCACAGTGGATGCGTTGTGGTTTGTGGTGTCTGAGATATATTGGGTTCTGTTACAAATATTCACAAGTGTCCTTTCTTCTCATTTAAACTTGCACTGGTCTTATACCAGAAATCAGACTGTAGACATGAACTCTAGTTCTAAATTTACTTCTCCAGAAATAGAAACAGGATTGGGTTTTAGGTGCTCATTGTTGCTAGTGTTTCCAGTGGTCACATTTTTGCTCTAATCTGCCTCTATCTTGTCTTCTGTTGGGGGGTCACTGATATATCTTTTTTTCTTTTCTTCTCAAATATATTATATAGAGAGATATAGATATATAGCTATATACATACATACAGATAGCAATAGGTATATAGATATATACATATGTACACACACACGCACACACACACACACACACACGCACACTCACTCATATGTCTGTCTGTCTATCTATCTATCTATCTATCTATCTATCTATCTAGTCCCTTAAAGAAAACAGCTCTTCCCCTCCTCCGTTAGAAGCTATCAACTGTGAGGAGCTATATCCCTATTACTTTTTTGCTTGTTTTTTTTTTTTTTCTCAGTCAAGGTTTCTCTGTGTAGTTGTATTGTGTAAACCAGGCTGGCCTTGAACTCAGAGTGCCACCTGCTTCTTCCTAACCCAAGTGCTAAGATTAAAGATGTATTACTCTTTACCCACCCCCTACCCCTGGACCCCCTTCCTATCACAGCTTTTTAGGCCTCTCTTCAGTGGCTTCCTCTCTAGACAGTTTCGTTTTGTTAGGGGGGAGTTAGAAATCACAGAAACCTTCAATGTCTGTCATTCTCAACTCTGAGTCTGGAGTCATTAGTGATAAATGCTATTACATAGGCTTCCTATCTGTGTTTTCACCTATCTGATGTTTCCACCGAGGACTATTTGTCCTCTGCTTCTACTTTTTCTGTGAATTCCTGTATCAAATTTAGATCAAAAGGGTAGTTAGATAATCCTGAATGCCAACAGTCAATGGCAGAAAAAAATGTTTGTTCAGTGGAATCACCATACATCTCACAAACAATCCAGCATGCGTGTTAGAAGGTATTAATGACAAAGCCGAACATTCCTACTCAGCTGTAACTGGTGCATCTCACCTAGAGCCACGCTTTACTCTTCTTATCTAAGGGCATAAGGGCAGAGTTAGAGTAAAGATGACCAGTTCTATGGTGTGGTGGCGCACACCTTTAATCCCAGCACTTGGAAGGCAGAGGCAGTCAGATTTCTGAGTTTGAGGCCAGCCTAGTCTACAAAGCAAGTTGCAGGACAGCCAGGTCTATTATATATATTTATAGGCAGAGAAACCCTTTCTTGAAAAACCAACAACAAAAGATTAATACTGAGTTGATTAACTCTATCACCTACTTTTTTGTGCCAAAACAGTCTAATATTGATTATTAATATAGGTATCTGTTCTTACAGAAATTATACTTTTATAACTCTAAAATGGACTTAATTAAATTGAAGAGTGCATCTCAAATAGTTAATTGGTACTTAGAAACATAATTTTCATTGGGAAGGACTTAGTTTCAAATGGGTATAAAGTGTTAAGGCTATGAATTTTTCTCTTTACTTTTTACTACTGAATGAGGTTTTGTTTTGTTTTGAAGTCCTCTGTTACTCATCCTAGTTTTATGGGTAAACTATTTACTATCAGTCAAATTCAGTGAATTACAAAGGCCAGGTGTGGTGGCATATACTTTTAATCCCAGCACTCTGAAGGCAAAGGCAGGTAGATAACCTGTGAGTTTCAGAGTAGCTTGATGGACAGCCAGGGCTACATAGAGATTCTTAAAAAAACAAAACAAAACAAAACCAAAACAGAAAAAAAAACCAACCCCAAAACCAAAAAAACACTCAACAACAAAAAACTAAAGAAGATGTATATTAAAAAATATTTTAAATATAGCTCAAAGGCTGGTGATGGTTCAGTGGGGAAAAGTGCTAGGTCTGATGACCTCAGTTGGATTCCCAGTACTCATATAATAGAAAGAAGTTGTCTTGACTGCCATGTGTAGGCTATAGCATGATGACATGACACATACATATTTATATATGCAAATGAATGTAATTTTAAACCTAAAATACAGTTCATAATAACAAATTGTAGGATATTACATAATGATTTGCAAACATTTTATTTTTCAAACTGTACAGTCAGGTATGGTGCAGTTGCCTCAGGCATTTGAGGAAGGAGGATTGCAGGTTCAGAGCCACTCTGAGATTCACAGATAGGTCAGAACATTTAAAACACGGCTTCATGAAAACATTGTAGGTGGTAGAACTATAATTTGAGCTTTTTATTAAAGGATAAATCAGGTTTCCTAGATATTAGTAGATTAGTCTACTTACTGGTTAACCTTAGGGGTAGTATAGTTAGGAAACTAGATATGTGAAAATATATTTATGCAGAAGATAAAGTAAGGTATTTTTTAAAGGAGTAGATAGCAAAGTATTTTCTCTAGTCACATCAGAGTCCTATTTTCTTGATGAATTTCTATATGAAAATAGGCTGTTAGGAAGACTCTAGAAAACTTGAATATGTCTAAATTTAGTTAGAACTTTTCAGCAGTCTGCATTCATTTTTCCAATGCACTCACTTGTATCTTTGTGATTTTACTCAAATAGAAAATAGTTCTGAAGCATTGCCAGATGTGTTTTCTAATATGATAATGTTCTGTTTTAATTTTCACAGGTTGGTGTTGTATGATAGACCTAGTATTTCAGAGGGCCTGGGGAAAAGGTTCAGTCAGCCAGTGCTTGCTGTTCAGACATGAGGCATGAGTACCTGAGCTTGGTCCCTGTCACCTATGTAAAAATTGGACATGGAAGTCTGTAATCCCAGCACTGGGGAAGGGAGGCAGAGACAGGGGGCTCTGAGCGCTTGCTGGCTAGCCAGTCCAGCTATATTGGCAAGCTTTAGGTTCAGTGAGCGACTCTGTTGAGCGAAATTGAGGAAGGCAACTGGCATCAAGCTTTGGTCTCCACATGCACCTGAATGTACACATAAAACATGGAGGTTTTTAGTTAGAAGGGAAGAGGACTTTACATTTGAATATATTCGATGTTCTGAAACCAATAATTAACTAGTCTTATAAGATTTGTCTAAGTTTAAAATATGTCTTTTTATGTGTTCTTTTTAAAACATACAACATTTTTCAG
Seq C2 exon
GCTGCAAGCTATTATACAAACAAGATTTTGCAAGACGATTAGGATTAAGATGTGTTACCTGCAACTATTGTTCTCAGCTGTGTAAGAAGGGAGCCACTAAAGAACTTGATGGAGTTGTCAGAGACTTCTGCAGTGAAGACTGCTGTAAGAAATTCCAGGAGTGGTACTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021945-Zmym2:NM_029498:10
Average complexity
IR-S
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(34.1=27.5),PF064679=zf-FCS=PU(85.0=66.7)

							
A:
NA

							
C2:
PF064679=zf-FCS=PD(12.5=8.6),PF064679=zf-FCS=WD(100=69.0),PF064679=zf-FCS=PU(10.0=6.9)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000022511f1127A





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000022511, ENSMUSP00000022511f5690A
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr13:20034405-20036736 
LOW PSI
HsaINT0185976
(ZMYM2)
Human
(hg19)
chr13:20608545-20610876 
LOW PSI
HsaINT0185976
(ZMYM2)
Rat
(rn6)
chr15:37198285-37202181 
ALTERNATIVE
RnoINT0169132
(Zmym2)
Cow
(bosTau6)
chr12:36412198-36414374 
LOW PSI
BtaINT0164721
(ZMYM2)
Chicken
(galGal4)
chr1:178299320-178310938 
ALTERNATIVE
GgaINT0106897
([1])
Chicken
(galGal3)
chr1:183355437-183367055 
LOW PSI
GgaINT0106897
([2])
Zebrafish
(danRer10)
chr9:21632557-21632777 
LOW PSI
DreINT0181024
(zmym2)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
No suggested primer sequences

				
R: 
No suggested primer sequences

				
Band lengths: 

			

		

	





	
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






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