Special

MmuINT0180540 @ mm9

Intron Retention

Gene
ENSMUSG00000040123 | Zmym5
Description
zinc finger, MYM-type 5 [Source:MGI Symbol;Acc:MGI:3041170]
Coordinates
chr14:57417747-57423076:-
Coord C1 exon
chr14:57422986-57423076
Coord A exon
chr14:57418030-57422985
Coord C2 exon
chr14:57417747-57418029
Length
4956 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
TTACTCATTTTGTTTTTAAGATT
3' ss Score
9.39
Exon sequences
Seq C1 exon
ACCAAGACTGCAGTAGGACCTTTTAATCCCGGTAGGATCGATGTCACGGATGCGTTTCAGAATGGAAGATTTGCAGTTCATCACAATCCTG
Seq A exon
GTAAGCATTACGTTGTATTTGCCTTGTGTTCAGGTAAATTTAGCTTTCTCTGTGAGTCTGTACTCATGCACCTAGAGACCAAAGCTTCTTCCTCTCTTGGTCACTACCTTATTTCTTATATTTTTGGTTGTGAGTCTAGCCTTTAAGGGCTGAGCCATCTCTCTAGCCCACTACCTTATTTCTTAAAACTTTGTTTTACTGACCCTGGAGCTCAGCAGTTCAGCCAGATTGGTTAGCTGGTAAACACCAGAGAACCTTTTATCTGTCTGTCTGTCTTTCTTTCTTTACCTTAACAAAATGTCTTTTAAGGGTCTCACTATGTAATCATGGCTGCTCTGAAATTCACTATATAGATCAGGCTGACCTCAGACTCTCAGAGATCCTCCTGCCTCTCTCCTGAGTTTAGGGATTAAATTTATGAGTTACCATTCCTGGCTTAACCTAAAAAAAAAATTTCAGATTGCAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGCTTGCTACAGCTCATGTAGAAGCTAGGTCAGCTTGCAAGGATCAGTTCTCTACTATATAGGATCTAAGGATCCAACTTAGGTTGTCAGGTTGACTTCAAGTGATTTTACTTAGTAAGGTATCTCACTGGCCTGCTTTTTGTTTTGTTTCGTTTCACTTGGGTACTGAAGCTCAGACTTAGGTCTTCATGCTTACACAGTTGTGGTACAAGCCTTGTACTAGCTATGCCATCTCCTCAGCTCCCATAGCTATGCTTTTTAGAATTCATATCTGATATATTCTGTATAAAATAAGTTACTGGCCTTCATATTAAGATAGAATGTATTACTATGTATTACTAAATATAACTGTGAAGTTTATTTTGTATCTGTAATTTGGAGAGGGTGATTTTTATTTTGTTTTTAAAGAATTATTTATTTTACAGACACACACACACACACACACACACACACACTGTAACTGTCTTCAGACACACCAGAAGAGGGCATCAGATCCCATTTCAGATAATTGTGAGCCACCATGTGGTTGTTGGGAATTGAACTCAGGACCTTTGGAAGAGCAATCAGTGCTCCTAATCACTGAGCCATCTCTCCAACCCCCAGATTTTTGTTTTTGTTTTTGTTTTAATCTAAAGCAACTCACATCTTAGCTGTTTTAAGGGCTGGAGAAATGGCTCCTAGGCCTTTTCTAAAACTATACTATTCGAGGTTCAAGGGGCTGAGAGGAGACTAATTTGGGAGTTTAATTACTAGTGGTTTTTAGGGTGTTGACTTTTAAGGACTAAAAAGTAAATGACCTAATAACACAAAATGAGGTTAATGGTCCCTGCCTGTAATCCTCGCACTGAGGAAGTGGCAGTAAGAGGGTCCCAGTTCATGGCGTGCTGGTGTTACATGAGACTTTATGTCAGAAAAACTGAAGCAAAGGTCCAGGTATGACGTCACAGGCCTTCATCCCAGCACTGAGGAGACAGAAGCAGGTGGATCTCTTTAACCAGGTCAGCCAGAGCTACACAATGGGACCCTGTCCCCTCCAAAAGAAAAACCTATACAGATTGGTCTTGCCATCCTTGTGTTTTATTTTTGTTTTGCTTTATTAATATTTCTAGCTATGATAATCATTCTATGATACTGATTCAAGGAACTAGGTAATTTCTAGTAATTTTAGTAACTAGGTAATTTCTGTTTCTACTGAGACTATTTGGGAATAAGATAAAAACTAATAAAATATCCAGCTGGGAAGATAACTGACAGGTGAAATGCTTGTTTCCTATACATGAGGGCTAGAGTTCAGATTCCTTTACCCTACATAAAAGCTGGGTGGGTGTGCCAGCCTTGCTAAATACTAGCACGTGGAAGATGGCGTCATACAATCTCTGGAGCAAACTAGATAGCCAGACTAAGTGAATTAAGTTACAGGGAGAAATGAACACAAATTTTGTTCATTTTGTTTGATAGTGGTTGTAGTACTTACTAAACTTTGGGTAAATTTTCTAACCTCTAGTTCTTAATTTCTCTTAGGGATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGTAGGGAGAGAATTGTATTTCATTTGTGTTTTTGAGATAAGGTCTCACTCTGTAGCTCTGGCTGTCCTTGAACTTACTATATGGGCTGCCTCAAACTGGCAGATCCTCATGCCTCTGCTTCCCAAGTGCTGGGGAAGGACTGCACCCTCATTCATACCTAGCATGTCTTGTGTATGGGCTAAATAAGATAGGCCTCAAAAACCTCACTGCCTGCTGATCAGACTATCAAGTTCTCAGCTGCTGTTCCAGCACCATGACTTTCTACTTCCTGCCATAAAAGTCATGGACTAACTAACCATCTGAAACTGTAAGCAAGTTCCTAATTAATACTTTCTTGGTCATGATATCTCTTCACAGCAATAGGACAGTGACTAAGACTGACACTTCTGGTCTTAAAATGTATCCTGAAGATGGGGTATAGAAAATTTTGTCTTAAGATTTCAGTCTGAGTAGAACCACTAAAACTCTCCCAGTTGGTAAGTTAATTAACTTATTTAAAGACAGGACATCTATACTCCAGGCTGGCCTAGAACTCAGTCATCTAAGCAGCACTTGGGATTACAAGCATGCAGTAAGGGCTGGAGAGATGGCTCCGCAGCTAAGAGCACCAACTGCTCTTCTGGAGGTCCTGAGTTAAATTCCTAGCAAACACATGGGGGCTCACAACCATCTGTATGAGATCTGGTGCCCTCTTCTGGTGTGTCTGAAGATAGCAACAGTGTATTCCCATACATAAAATAAACAAAAAATAAATAAGTAGGGTCTGCAGAGATGGCTCGGCAGTTAAGAGCACTGACTGCTCTTTTGAAGGTCCTGAGTTCAAATCCCAGCAACCACATGGTGGTTTACAACCATCCATAATGAGATCTGATGGCCTCTTCTGGTGCGTCTGAAGACAGCTACAATGTACTTAGAAATAATAATAAACAAATATTTTAAAAATAAACAAAAACAAACAGGTTTTTTTGGTTTGGTTTGGGTTTTTTTTTTTTTTTTTTTTTTGGTTTTTCGAGACAGGGTTTCTCTGTATAGCCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCTCAAACTCAGAAATCCACCTGCCTCTGCCTTCCGAGTGCTGGGATTAAAGGCGTGTGCCACCACGCCCAGCAACAAATAGGTTTTTTAAAAAAGCATGCAATAATATACCCAGCTGAACGTTTTTATTTAGGTATTTAAGTAGTTGCATTGTAAAAATAGATACTTAGAAAAGAAATCCCAGCACTTGGGAAGCAGAGGCAGGTGGATTTCTGAGTTCGAGGCCAGACTGGTCTACAGAGTGAGTTCCAGGTCAACCAGGGCTACACAGAGAAACCCTATCTCGAAAAAAGAAAAAAGAAAAGGAAAAAAAAAATCTGGGCAGTGGTGGTGTATGCCTTTAATTTCAGCACTTGGGAGGCAGAGGCAGGTCGATTTCTGAGGCAGAGGCCAGCCTGGTCTGGTCTACAGAGTGAGTTCCAGGGCAGCCAGGGCTACACAGAAACCCTGTCTCGAAAAACAACAACAACCAAAAAAGAAAGAAAGAAAGAAAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGAAAGAAAGAAAGAAATGAAAAAACCAACCAAACAACAACGAAAAAATAGACACACTTGTTTTATATATGTGCCAAACCTAAAGTGATTTTTCCCCCCAGATAAATTACCATTTTAAGAGCCAGGCACATTGGTGCATACCTTACTTTTAATCCTCACATGCAGGAGGTATAGGCAGGCAGATCTCTTGGAGTTTGAGGGCAGCCAGGGCTATTACACAGAGAAACCATGTCTCAGAAACAAAACAAAACAAAAATAACCATTTTAAGCAATGTAATACTGGTATCTTACTTTCTTAATTCTATACAAATATATTTCCCTTAAGTAGCAGGAAGTCTACAATGTAAACAAAACTATTTGGAGAGTTGAGGTTTATTTCTCTCATAGTATTAATATTGATAAATCTGATAAAGATTGTTATGTTTTATTCCTACTGTAGATTTAATCTGTTTGCTATATAGATTTAAATAATCAGAGAAAGTTTGATCCCAGACTATAACTTCTGCCTACTCTACAGTTGAATATGTATTTACCTTATTCCTTGCAACACTGGAGAATTAAGTGTAATTTCAATTTATACGAGAAAAAAACAAGCGAGCCATAGGGCTGAGAATTTAGCTAAGTTGTAGAGCCCTTACCTAGCATATACATCTCCAGCACCACAGAGAGACCAGAAACTCAGAACTTTCTGTACTTGCATGACATAGTCTATTCAGGAGAGTTTTATACCTGAGGAGTATGAAAATGACTGGTGGTTTGCCATATTGCATAATCTTAGAAAACATCATTTATTTTTTTCCCTGATAAAAGAAAATATTCCTTAGAATTCAAAAGCTTGAGGAACCAGTTGTAGCTGCCTGAAACCTTTGCTTTTAGAGATAGTCTTGCTACAGTAGACCAAGCTGGCTTCAAAGTTGTAGTCATTCTCCTGTCCTTTTGTACATCATACTTTGATTATAGGTTGCACCACCGTGCAGGATAGCACTCTTCTTACAGGAGAGAACTGGGGCTTCAATCAAGCTAGTGCTGTACCTTAAGCCCTTCCCTAAATCCCCCTCTCTACCAGGTAGGCCCTGTGTCCACCAACTGGAAACCAACTGTTGAAAAATGAACTCGTGGGAAACTTTTTATACCCAGTGGAATAGTAGGAAGAATACTGGATTGATTGTCAAAGTTATTTTGCCTTAACCACGTGCTATGAGTCTCTTAAACACTTAAATCCAAAGGTTGCTAATATGTATTTGTATTTGTTTCCATCTCTTTTTCTTACTCATTTTGTTTTTAAG
Seq C2 exon
ATTCTTGGATCTCCCAGTCAGCATCATTTCCTCGTAACCAGAAACAACAAGGGGTGGATTCTTTATCACCAGTGGCCTCACTTCCTAAACAGATATTCCAGCCCTCGAACCAACAACCCACTAAACCAGTTAAAGTCACTTGTGCAAACTGCAAAAAACCTCTACAGAAGGGGCAGACAGCTTACCAGCGAAAAGGATCAGCTCACCTCTTCTGTTCAACCACCTGCCTTTCTTCTTTCTCCCATAAGCGTACTCGAAAGACACGGAATGTAATGTGTAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040123-Zmym5:NM_144842:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.871 A=NA C2=0.500
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
PF064679=zf-FCS=WD(100=43.2),PF032929=Pox_P4B=PU(6.7=8.4)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000106916





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000043625, ENSMUSP00000134057
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr13:19837822-19851354 
ALTERNATIVE
HsaINT0186054
(ZMYM5)
Human
(hg19)
chr13:20413126-20425494 
HsaINT0186055
(ZMYM5)
Rat
(rn6)
chr15:37048295-37049845 
ALTERNATIVE
RnoINT0169187
(Zmym5)
Cow
(bosTau6)
chr12:36503479-36513359 
ALTERNATIVE
BtaINT0164797
(ZMYM5)
Chicken
(galGal4)
chr1:178334841-178343613 
ALTERNATIVE
GgaINT0106887
([1])
Chicken
(galGal3)
chr1:183390961-183400494 
GgaINT0106887
([2])
Zebrafish
(danRer10)
chr9:21639150-21642659 
LOW PSI
DreINT0181014
(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"