Special

MmuINT0180526 @ mm9

Intron Retention

Gene
ENSMUSG00000042446 | Zmym4
Description
zinc finger, MYM-type 4 [Source:MGI Symbol;Acc:MGI:1915035]
Coordinates
chr4:126554873-126559554:-
Coord C1 exon
chr4:126559459-126559554
Coord A exon
chr4:126555025-126559458
Coord C2 exon
chr4:126554873-126555024
Length
4434 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
TGTTTTCTCCCTTTCCACAGCCC
3' ss Score
11.6
Exon sequences
Seq C1 exon
GAGGTGAACTTGCCTCTGCTAGTCCGTGTTCTGACTCCTTAGGAAGTGCTCAAGACCATGCCCTCTCTCAAGAATCCTCAGAGCAAGGCTGTAAAG
Seq A exon
GTAAAAGTTGCTAATATCTCTCTGCTGTAAGTTACGTATAGTATTGGAGTTTAAATTTTTAATGTGTGTGAATATTTTGCCTATATGTGTATATGTGGAATATGTGCATGCCTGGTGCATGCAGAAGCCAGAAGAGGGCATTGGATCCCCTAGAAATGGAGCTACAGGCAGTTATAAACCGTCATGTGGGTGCTGAGACGAAAACCTGGGTCCTCTGGCAGAGCAATCAGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCCTAGTAATATTGTTGATTTAAGTTTGTAAACTGACCAGATGTGGCTAGGTTTGCTAGTCTTGGCACTGCAAAGAAAAGAGAATTAAGAGTTCAGGGTGATTTTTAGCTGCACAATGAGGTCAAGGCTCCCAGAAAGAGGAAGGGTGCTGAATTGAGTTTTAAAATGTAAGATTTAGAGTCTTAAGAGTAATTAATTTCATATCCTCAGTTGTAAAGATGTTACTGTGTTTACAACTGATACCGAGTTTATACAGCATGTATAATTAATTTTCTTTTTAAGCACATAAATAATTCAAAATAATCTAATGTGTATGTATAATAAACTATATTAAACTGTAAGGCTTTTATGATATTTTGGATTTTAAAAAAAAATCAAGAAAAGACTTGCTGCTCCTGTATAAATATTCCCCGCCATTGAGATCCCTATGGCTTTACAAAAATTTTAAGACATATTTTATGTGTATTTGTGTTTTGCCTGCATTTACATATATGTATAACACAGATGCCTGGTGGCTGAAGAGGTCAGAAGAGAAGGTCAGATTCCCCTGGAACTAGAGTTACAGATGCTGTGAGTTACCATGTAGGTGCTGGAAAAGCAAACCCAGGCCCTCTGCAAGAGCAACCGTTCATTGCTCTTATCTTCCTTTTTTTTTTTTAAGATTTTATTATATATATATATGATGAGCATACTGTAGCTGTCTTCAGACGCACCAGAAGAGGGCATCAGATCCCATTACAGGTTGCTGTGAGCCACCATGTGGTTGCTAGGATTTGAACTCAGGACCTCTGGAAGAACAGTCAGTGCTCTTAACCTCTGAGCCATCTCTCCAGTCCCCGCTCTTATCTTCTGAATCATTTCTCTAGCCTCAAGATCCATAATGCCTTTTAATGTTTGTTTCATTTTAGTATCTAGCCAGAGTCAAATAATTCAAATATAGCACTCATGTACTATGACACCTTTTTTTAGACTTCCATAAGTTTCCACTTTTTGTTGATTTGATTTACTGATCTAGACTGTTTTTGTGTTTTGTTTTTATTACTTTGTGTTTTATACCAGTAGAGTCAGAATGGATGAAGTGAGGTTGGTTTGTTTGTTTTTTAATAAAAGAGAGTTTAATTTGGCGCTTGCCATTTTAGAGGGTTAGAGTCCATGAGCATCCCAGCAGACAATATGGAGGCAGGCAGGCATGAGTATTTAGAAAGCCTGTCCCCAGTTACATACCTTGTCCAACAAGGCTGCACCCTCTAATGCTTCCCAACTAGTACCACCAAATAGGGACCAAGCATTCAAATACATAACTTGTAAGGACCATTCTCATTCAAACTACCATATTCCACTTCCTGACCTCTATAGGCTTGTAGCCATATCATAATGCAAAATGCATTCAGTCCAACTTGAAAAGTCTTCATGGTCTTTCAGTCTCAACATTGTTTGAAAGTCTCTTGTGAGACTCAAGACAATATATCAGTTGTAACCTGTAAAATCAAAGCAAATATGTACTTCTAATGTACATTGATACAGAATATTTATTAATGTTTGAAAGGAAGGAATAGGGGCATACTGAGGAAATACTGGACCAAAGCAAGACCAAAACCCAGCACAGCAAACTTTAAATCCTATAGTTCTATGTCTGATGTCAAATGGTTTAGATGGCTCCACCCTTCCAGTTTTGTTGACTACGACACACTTCTCTCTCCTGGGCTGACTTCATTTCCTATCTGTAGCTCTCTAATGGCTCCGGCATCTTGAACATCTGGGGACCTGTCCAGTGCAATCTTGACTTTCCTTTCATAGCTTTACAAAATGGCCTCTCTGGTCCTCCAGTAAGGGACTCCCCCTGCCTCACACCTGACCTAAGTGTCTCTCCTTAGCAGCAGAGGAAGATTGATGTCACAACCTTCACTACTGTATTCTTTATGACTCCAAAGCCAGGGCCACATGAACAACACTGCCAAGTCCTGCTGTTTGCTTGGGATTCGGCTTGACCCCCTTGAATCAAATTTGCATAAGCTTTCATTTGTTGCTGTTTGTTTATATTTTTTGGTTTGGGCTTGAGATTTCCAACTATATATTTTCTCTTACAAGTGGGTGATTATCAGGTTTTGACTTTTATTGCTAGTAGTCTGTTTGCTGGCCTTGGAGTTCACCAGTTCTGATCAGAGCAGGCGGTTGGTACTCTGTTCTGTGATGACTCACAGTCTCTAAATCAAGTGTTAACCTTTGTTCTCCACAGGGTCTGTAAATGCTTTCCTATTGGGAAGTCGTGCCTGTAACCATTTCCCTGTTGTGTAGCTTTCTTCATTGAGAGAACAAAGAGAGCCAGGTGCAATATATCTGTAATTCCTGTATTTTCAGCTGTTTAGAGGCAAAGGAATTAAGATTATTTGAGTTTATAAGTTCAGTACTAGCCTTGACAACTTAGACTCAAACTTAAAAACAAAATGTGGGTGGAAAATGGTAGGAGTGAAAGTGGAGTGGTGGCTGGGCAGTGGGGGCGCACACCTTTAATCACAGCACTTGGGAAGCAGAGAGAGGCAGGCGGATCTCTGAGTTTAACAACAGCCTGGTCTACAGAAAGTTGTAGAGCAGCCAGGGATACATAGAGAAACCCCTATCTCAAAAAAAAAAAAAAAAAAAAAGAGACATAGAGGGGGCGGGTGAATGAACACACACACAGACTAGTAATATTGTTTTAGATTACCAAGTCTTCAGATTGGTAGGCACAGGAGCTAGCTGTTCAGTCATTTCTACTTGTCATTTTTCCACAAAATCTGTAGAATGTGCTATTCACCAGATATCCAGATACGCCGAGTACAGGGACGGTCCCAGGATCCTCCCTTACCTTGTGCAGAGCCAACATAGAAGAATCGCAGGCATATCTTTGGGAAGTGTAAGCCTGTTGGCATGCATGAAAGCAGTGATGGGGGTTCATACTGCATAGCACAGATGAGTGTGTTCCAGTGGGAGCTGTACACACGGGGTAACTCTCCTGCTGGAAATAGAGATTTTCATTTCTTCCCAGTCTTAGTGTAACACATGAAACTCGTGCTTGGCCTGAATTTGTCCATATTTTCTTCCCTTCCCCCAATTTCTTTGAACCAGTTCATTTAATGACCTAGCAACAGCAGTACTGCATTCTAACATTTCTAAGAGCATGATGGTATTCTGTGTTATTTGAAATAATCTTATACTAAGTTCTGAGAAAGAGAAAGTTATGCAGCACTTCCTCAGTGGATCTTCCCAGTGCCTTTAATACAGCAATAGGTCCAGGAGTTCTGGTCTTAGTACAAACCCCGTCCCAGTTTTCTCCAATTCCCATATAGAACTGGATTTCCTATATATGAAGCTGGCCTCAAGGGGGGGGGGTGAGGAGAGACAGAGAGAGAGACAGAGACAGGCAGGCAGAGGCAGAGGAGAGAGAGAAATCTAATAGGGAAGGGTTCAGTTAAAAGAGTCTGAAGGAAGCAACACAGGGCTATACCACAAAGAATGAAGATTTAAAAGGCAGGCAGGTAAAGAATACCAATTTGAAGATGCAAAAGATCTCCAGAGAACATTCAATAACAATTTTCATGGCCTAGGACTGTGCTGCAGCAGGGAGAACATTTGCTCAGTATGTCAGTCTCTGTCTGACTCTTTCTCTCTGGGTCTCTGTCTGTCTCTGCCTCTCTTCACTCTCTCTCTCTCTTCACTATGTAGCCCTGGCTGTCCAGAATTTGCTGTGTACACAAGTCTGGACTCTAACTCAAAAGAGATCTGCCTGCTTCTTCCTCTCATGCTGGAATTAAAAGCACACACCATTGCACCCAACTTCTTTTGTTTACTTTCATAGAGTCCTAGTTAAACAAGACTTGTGCCATACATAGTACCTGTTATACCATATGCAGTAAACCATCTTTATTTGTCTACTGGTAAAACAGGATCTGTTCTTTGATTGGTTTTTTTAATTCGGCACAAGGTTTTTCTTTGTAGCCCAGGCTAGCCTAGACCTCAGAATCCTCCTGCTTCAGCATCTTGAGAACACAGGTTACAGGTGTGCTTTCCTATTTACAGTGTCTTTGTGACCCAATACAGTGTTGGGCACACTAGTGCTTGTGTTGATTCAGTAAATAGTAGTTATACACTGTTTTTTAAAGTTAATGTTTCAGATGTGTTTTCTCCCTTTCCACAG
Seq C2 exon
CCCGCTCTGTGAAACTGAAGGAAGATATTCTGTCCTGCACTTTTTCTGAGTTGAGTTTGGGCTTATGCCAGTTTATCCAAGAGGTGCGGAGACCAAATGGTGAAAAGTATGACCCAGACAGTATCTTATACCTGTGCCTTGGAATTCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042446-Zmym4:NM_001114399:25
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.091 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000101714





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000030630, ENSMUSP00000120813
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr1:35405469-35408007 
ALTERNATIVE
HsaINT0186039
(ZMYM4)
Human
(hg19)
chr1:35871070-35873608 
ALTERNATIVE
HsaINT0186039
(ZMYM4)
Rat
(rn6)
chr5:144891994-144896344 
LOW PSI
RnoINT0169173
(Zmym4)
Cow
(bosTau6)
chr3:110935275-110937487 
LOW PSI
BtaINT0164782
(ZMYM4)
Chicken
(galGal4)
chr23:4304484-4305890 
ALTERNATIVE
GgaINT0137499
([1])
Chicken
(galGal3)
chr23:4674322-4675490 
LOW PSI
GgaINT0137499
([2])
Zebrafish
(danRer10)
chr19:40519926-40520963 
LOW PSI
DreINT0181040
(zmym4)
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"