Special

MmuINT0180463 @ mm9

Intron Retention

Gene
ENSMUSG00000021945 | Zmym2
Description
zinc finger, MYM-type 2 [Source:MGI Symbol;Acc:MGI:1923257]
Coordinates
chr14:57557242-57560964:+
Coord C1 exon
chr14:57557242-57557276
Coord A exon
chr14:57557277-57560834
Coord C2 exon
chr14:57560835-57560964
Length
3558 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TTCTCTTTGCTTCTCTGAAGGGC
3' ss Score
8.25
Exon sequences
Seq C1 exon
ATCAGGGCTGTCAGACGTCCCGAACCAAAATGACA
Seq A exon
GTGAGTATTTTTCAGTTTAGTGCTGTGATATGGTTTATAGTATAAGTGAAAGTAATTAGGCTGAGTTAATATGATCACCATGAAAGGTGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTAATACTGTGTTGAAACAGTGGAAACGTTCAGCTTACTTCCTAGTAGCAGAGACTGTCAGGCGTAATGTGAATCATTATAACCTCTGCCCAGATGGCATGTGAATTGACATAGGAATAGCTTTGGTAGGATTGCTCCTCTGTCCCTCTCTGTATTTAGAGGGTATGGATGGGCCAGTGGTAAACAGTTAGGTTTTTAAGGGAAGCAACAAAGGACAAAGTACACAAGCTACACACTAGAGACCAACCTGACATGGATCTCGCTTGGAGGGAAGCAAGGGAAGTGAAGTTAAAAGTAGTGTGATATGAAGATCTCTTAGTGGATGGCTGGATCTATGAGTCTTTTAAACCTGAAAAATATATAATAGAGTCTCTGATCCTATTTTTTTTTTTTTAGCCTTTTCCTTTCTTTTAGTACAATGCAGCAAATCCTTAATTACCTGTAATGATTACTAGGGAGCATAAGTAGTGGTTGGCCATACCATGAAGAACAGTGAGGCACTGTCTGCCTTTAGTATGCCAGCTCTTTTGGAGTTTCTAGCACCCTTGTTCAAAAGGTCTGTGCTAGGGGTTGGAGAGATGGCTCAGCGGTTAAGAGCATTGACTGCTCTTCCAGAGGTCCTGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGAGATCTGAAGCACTCTTCTGGAGTGTCTGAAGACAGCTACAATGTACTCATAACAATAAAATAAAATTGTAAAAAAAAAAGGTCTGTGCTAAAGGAATTGTTCATTGGCATTAGAAAAAGCCTGTGGACCAGCTTATACTATGCTTAAACAAATCAATAAAGATCTGTAGCTCCAACTAAGCTCATCTAGCAGGTTTTCAGAACTCTGAGATACCTAGGCTCCAACTCAGAAATTGTGATTCAGAAAATTATTTAGGTGGTTCTAATATAAAAGTAGAGGTGACAATAACCTACAGACATACATTCTTTATATCCTTGGGTTAGGGCGCCATCATGGCTATTAAGACTTGTATCTTTTTTTTTCCGCATTGTAATCTTTTAGCCCTGTATCCATAGTCAAGAGAAGCTTAGCTGATTTTTTTTAAATAAGCTGAAATGTGTTCTATTTCATATATATATTCACACACACACACCCCACACACTATTAATAGAATTTCATTTGAGGTATGATTTAAGTGATAATAACATGCACAATATAAAACTATGGATTAGAGTAATAAAAAAGGCACAGCCACAATTACCATAAACTAAAAAGTAGTATTTAATATTATCAGAATTCCCAAGCTTTTAAGCTGACAATCAGTTTTCCAAAATTGTACTAATTTATTTTTAATGACCTGTTTAGAAAAAGTGTAATGAATAGCATGGCTTTGTAGCTTTCAAATGCTTATAGGATGATAATCAGAATTAGAACATTAAACCTCAGCTAGTGCTGACTGTTTACACATTTGATATGTTGAGAAAGTTGAACTTGAAGGACGTAAGTTATGTAGATACTGTAGAAGAATCTGGCAAGTGTTTTACAAGAGAATGTGAAGAACAGCTTTCTAGAGCTGACAGGAGTGTCTGGTGCTCTCAAGGGCATTGGTAAACTTACTAATAGTTCTCAAGTATCTAGCTTTAAATTACTCAGTTTCTGCAGCCTTGCCATTATATCAGTGCTCAGAACAACTTTACAAGCTCATATTTATAGTGCTCAGAATCTGTGAACTGTCTATGTCATTCTGTGGGAGATGGGGTGAAAAAGCATAGGGATGTCTAAAATCGTCTGTAGTTCTACAGCTGCATCATGCTAGAAGGGAGAGACCCTGGTTTTCAGAGTTGAAGAATTACTTTCCATTAGGCTAGAATTCTTAGGTTCTAGTCATTTGTGGAAACAAAATCAGAGTGTCCTTCACTTCTCTCCCACTCAGTGTAATCAGTTTGAAAATTAAGGCTTGATGTGGCCGAGACTTGTAGTCTCAGATACTCAGGAGTTGGAGGCAGGAGGATCAAAACGTCAAGACCTAAGTGGTTTACAGAGTTAACTTCAAACCTTAAGGCTAACCTAGGAAACTGAGACCCAACTCAAAAAATTTGTTGCATTAAATAAGGTTACATGATACAGCCTAGTAGAAGTGTATTTGCCTAAGGTGTGCCAGGATATACATTTTTTTTAAACGATTTGCATTCTACAAACTTTGAAGGCATGAGGAAGCTGCAAATCTTAGTGTTAGCAAAGAAACTCCCACAGTGGACAACTGCCCAATATTATTACATTAATTCAGCCTGGGGCAGCACCAAACACATTACTATTAGCTAATTGATGGAGAAATGTTTGTTAGAGTAAGGAGTTTTGAAGGCTCTGAATTCTGGTAACTGGAAATAGAAATGTTAAAACATAATTTAGGGGCTGGAGAGACAGCTCAGCATTTAAAAGTACTTACTGCTCTTGGAGAGGACCTGGGTTTGGTTTCCAGCACACATGGTAGCTGGAACAACGATCCATTACTCCAGTTTCAGGGGATCTGATGTCCACTTCTGACCTCTTTAGGCACCAGGCACACACATGATACATACATGCACACAGGCAAATACTCATATACATGAAATAAAGATACATAAAAAATGTTAAAGTCCACATAGTTTATGTTGTGCAGTAAACGGGTAGGAGAGGCTTTGGTGGGTACAGACAGAATGGATGTCTTGAAAAAACTGTCAGTGTTAAGGAGAAATATGACTCTGTGCTTAAAACACGGCGTCAGAGCTAAGTACCACATGTGTATATGCTAAGTGCCACATGTGTATATGCTTCGTATCATAGTGCCTAGAAATTGGAGGCAAATCAATCAACCATAGGAGACTAAAAGAGTTGGCTTGGGAGGGAAAACTGGTTGCTGCCAAATCATAAGCTCTAGTTCGGCTAACCTCTCCCTTGGTTTTATGAATTTCATAAACCTCTATATCATAGACCTCAAGCTCTACCAGAGCAAAACTTAGTGTATTTATAATTAAACTTGTAAGTCTTTGTTCTGTGTATTTTCAGGATTTTAATTTATAGTGACATTACTCTGTAGAGTGAATTCCTGCTGCTAACCAGTGTGTTTAGATCCACATTGATCCTCCAGATTATGACTGGTAATCTAGGAGTAATAATATTTGGTTATACTTTCCCACTTTTTGTGGAAGTCCACTTAAGCGTTGGAAAGCAGACAGTGAGCTGGGCATGATGGCACATTTCAGCACTCTGGAGGCAAAGGCATGTAAATCTCCATGAGTTTGAGGACAGTTTGGTCTGCGTTCCGAGTTCTAGGCCAGTCAGAACTATATAGTAAGACTCTGTCTCAAGAAAGAAAAGAAGAAAGACAGGAATAGAGGAAAGAAAACATGATCAGTACCAGGAAGATGTTAAAATTACAAAAATAAAATGTTTCTCTTTGCTTCTCTGAAG
Seq C2 exon
GGCTCAGCACCACCCCCTTCTCCTACACCAAACAAAGAGATGAAGAATAAAGCAATTCTTTGCAAACCTTTAACAATGACAAAAGCAACTTACTGTAAGCCTCACATGCAGACCAAATCTTGTCAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021945-Zmym2:NM_029498:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.333 A=NA C2=0.386
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
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)
chr13:20052312-20058574 
ALTERNATIVE
HsaINT0185979
(ZMYM2)
Human
(hg19)
chr13:20626452-20632714 
ALTERNATIVE
HsaINT0185979
(ZMYM2)
Rat
(rn6)
chr15:37206129-37209490 
ALTERNATIVE
RnoINT0169114
(Zmym2)
Cow
(bosTau6)
chr12:36402181-36404666 
ALTERNATIVE
BtaINT0164724
(ZMYM2)
Chicken
(galGal4)
chr1:178290083-178291991 
ALTERNATIVE
GgaINT0106900
([1])
Chicken
(galGal3)
chr1:183346200-183348108 
LOW PSI
GgaINT0106900
([2])
Zebrafish
(danRer10)
No conservation detected
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"