Special

MmuINT0180453 @ mm9

Intron Retention

Gene
ENSMUSG00000043872 | Zmym1
Description
zinc finger, MYM domain containing 1 [Source:MGI Symbol;Acc:MGI:1915560]
Coordinates
chr4:126736037-126736903:-
Coord C1 exon
chr4:126736754-126736903
Coord A exon
chr4:126736276-126736753
Coord C2 exon
chr4:126736037-126736275
Length
478 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
TTTTCTTCCTATTTCTCAAGCTC
3' ss Score
7.49
Exon sequences
Seq C1 exon
CACACCACATGTATTCAAGAGCTGGAGGAGGCCAGAAGCTGGGGTTAAATCTCTTGAAACTGGAGTTACAGGTGCTGGGAACTGAACCCAGGTCCTCTGTAAGAGCAACAAAGTGCCCTTAACCAATGAATCACCCTTCTAATCCTAAAT
Seq A exon
GTAAGTCTTAAAATGTTTCTTTTTTAATTGGGAAATCCTGGGTAAACGGGAAGGAAGCACACACAGCACACCATAGCCTGGTGTTCGCTCACACAACACTCCATAGCTTGGTGCTCAGGGCAGTTATGTGGAGGGTCCAGCAGGCTCTCCCTTAATCTGCCATTTTCTGTTGAGTTGGCCAGTTGCCTTGAGTATACTTTGTACATTATGTTCAGTTCTCTATTTTAAAAGAGCATTGTCAAATCCAACAACCCAAAATTCAGGAGAAAAGAAACTCCACATTTTCATACAATGGTAATAGTATGAATCATAACTTGTTTTTGATCAGTCAAATAGCCAAGTTAGTCTGTTTTCTAAAATTGCCTTTGAATATTATGCTATTGTGAGTTCGGTTTCATATCCAGAAGTAGCCTCTAAAATGAAAGGTGTATACTTGTTTTATGTACATGGAAATTCTGTTTTCTTCCTATTTCTCAAG
Seq C2 exon
CTCCACAGTTGACGGTCTTCTCTCCTCTCACCTGACTTGAATAAAATGCTTCCTGCAGTTCCAGGCACAGCTGTTCGACTCTCCTGTGCCAAATGTAAAAGAGTTTTTCAGGAGGGACAGACAGCTTTTCAGAGGAAAGGGTCTGCTGAGCTTTTCTGCTCAAGACTATGCATTGATGGGTACCCGTCACCTGCTGTGTCTCCAGCTCCTCTCAAAAGGATGTGCTTAAATTGCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043872-Zmym1:NM_026670:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
No protein impact description available





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
NA

							
A:
NA

							
C2:
PF064679=zf-FCS=WD(100=63.1),PF060616=Baculo_ME53=PU(80.3=93.8)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000050669





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000050669f4464A, ENSMUSP00000050669f5900A
          









    
Other Skipping Isoforms:
ENSMUSP00000101705, ENSMUSP00000101708, ENSMUSP00000120772
  



Associated events






Conservation


Human
(hg38)
chr1:35095892-35097316 
ALTERNATIVE
HsaINT0185965
(ZMYM1)
Human
(hg19)
chr1:35561493-35562917 
ALTERNATIVE
HsaINT0185965
(ZMYM1)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr3:111192007-111192212 
ALTERNATIVE
BtaINT0164712
(ZMYM1)
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: 
ATTCAAGAGCTGGAGGAGGCC

				
R: 
TGAGAGGAGCTGGAGACACAG

				
Band lengths: 
352-830

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]










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