Special

MmuINT0180533 @ mm9

Intron Retention

Gene
ENSMUSG00000042446 | Zmym4
Description
zinc finger, MYM-type 4 [Source:MGI Symbol;Acc:MGI:1915035]
Coordinates
chr4:126592316-126592909:-
Coord C1 exon
chr4:126592825-126592909
Coord A exon
chr4:126592572-126592824
Coord C2 exon
chr4:126592316-126592571
Length
253 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
TCTTTTTTTTTTTTTTAAAGCTC
3' ss Score
9.97
Exon sequences
Seq C1 exon
GAGTATAGTCATGGCCAACAGCAAAAAACTCAAGAGGGGGAACTGAAAATTAGTGCTGTGTTTTCAGTCAGTGGCAGTCCTCTTG
Seq A exon
GTAAGAATCAGACCTGAATGAATGAATTGTATTTATTCTGGCCAACATCAATGAGAGGCCATTTCTACTTGGGTAAATAAAATAGGGTGTCCTCTGTTCATTTAGAATCCTTTATGTTGTATATTCCATAATTAATACTGGGTTCCAAAGTAGCTATAGAAGAGAAAGTACAGATGCATAAAATATAAAATTAAAAAGTAAAATTTTTTGCTTTGAATGTTCTTTTCTTTCTTTCTTTTTTTTTTTTTTAAAG
Seq C2 exon
CTCCACAGTTGACTACTGGCTTTCAGCCTTCTCTGGCATCACCTGGCATGAATAAAATGCTTCCTTCAGTTCCAGCCACAGCTGTTCGAGTTTCTTGCTCTGGTTGTAAAAAAATCCTCCAGAAGGGGCAGACTGCTTATCAGAGGAAAGGGTCTACTCAGCTTTTCTGCTCTACCCTGTGCCTCACGGGATACACAGTTCCACCTGCCCGCCCACCGCCTCCCCTCACCAAGAAGACTTGTTCAAGTTGCTCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042446-Zmym4:NM_001114399:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
No protein impact description available





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.575 A=NA C2=0.202
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
PF064679=zf-FCS=WD(100=47.7),PF064679=zf-FCS=PU(28.9=15.1)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000101714





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000030630, ENSMUSP00000120813
  



Associated events






Conservation


Human
(hg38)
chr1:35370114-35370371 
LOW PSI
HsaINT0186047
(ZMYM4)
Human
(hg19)
chr1:35835715-35835972 
LOW PSI
HsaINT0186047
(ZMYM4)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr3:110978688-110978924 
LOW PSI
BtaINT0164788
(ZMYM4)
Chicken
(galGal4)
chr23:4318286-4318737 
ALTERNATIVE
GgaINT0137481
([1])
Chicken
(galGal3)
chr23:4687886-4688337 
LOW PSI
GgaINT0137481
([2])
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
ACTCAAGAGGGGGAACTGAAA

				
R: 
AGTCTTCTTGGTGAGGGGAGG

				
Band lengths: 
297-550

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






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