Special

MmuINT0178506 @ mm9

Intron Retention

Gene
ENSMUSG00000030016 | Zfml
Description
zinc finger, matrin-like [Source:MGI Symbol;Acc:MGI:1203484]
Coordinates
chr6:83904705-83907586:+
Coord C1 exon
chr6:83904705-83904755
Coord A exon
chr6:83904756-83907502
Coord C2 exon
chr6:83907503-83907586
Length
2747 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TGTAATTCTACTTTTAAAAGCAA
3' ss Score
3.14
Exon sequences
Seq C1 exon
CCAAATCTGGACAAATAAAGTCATCTACGGTCAAGGTGAACAAATGTGCAG
Seq A exon
GTATGTTGGTTTTATATACCCCATTTGTTTCTTGTAATGCTGGGGATTGAATGCACAACTTTGTGTGTTCTAGACAGGTGCCTCCACTATTGAACTACACTGCATGTCCTGTTGGTTTAGTTTATTAGGATTTTAGTTACTAAATTGCTAAAGAGTTGCATAGGCATAGATTCATGAGATAAAGTATGTATTAAATATATGTATTAATATTTGAGAATTAGTAATTTAGTTGTCAGAATGAGATTTAATACTGAGTGCTCTAATATTCTCAAAGATAAATAACTGGAGAAGCATTTCTGGGAATGAATATCATATTTTTTTCTTCCTCTTTCATGAATTATCTTTATTTTATATAGTTGTCCAGATAATGCACATACAATTTTTATAAACTATAGTTCTTTTTGTTGTTGTTTTTTGCTTGAAACTGAATCCCATGTATCCCAAATGGGTTCTGCACTTGCCATGTAGTCAAGGTTATTTTTAAATCCTGATCTTCCTGCTTCAACCTCCTGAGTGCTAGAATTACAGGTGTGTACCACCATGCCTGGCTTAGTGTTGTGGGTTTTTAAGTAACAATTACAATTTCTTTCACTTTACCCGGGTGTGTTCCACTGTTCTCCTTTCCTTCCTATTTCTGCTAAATACAGGTTATTTTAGAGATATTGAGGATAAAGAGTAGTGTGTTAAATTGTGTTCTTTGTGTTAAAAAGGTAAATGCCATTGTAACTGGCAGATTTGGCATTTTCTTGTAGTCTAAGATAGTCTTCTGAGATGATCATCATGTTTTAGGAAACTTTTTGAAATTTCATTTATTTAACAAACAATTTTATTTAAAGTTTATTGGAGTCTCAAATGGAGATCACTAGGCTGTGAACTAAAAGTGCTAGCCATCCATTAACTGCTGGGGATAAATGCTAGGTAGGCATTATTTCCTTCAATTTCTAGTGTCCTCATCTAAGTGGTAAAGTGACTTGTCCATGATAATAACAGGTATACATAAAGAAATCTCTTAACTGACTTACTGAGGTTTAGTTTATTCAGGATAGCAAACTTGTAAATTGCTAATAATTGACTAGTTAAGTGCCAAACTCTTAAGGGTTGGTGCATAATTTATCAATTTTGGACAAGGATACATTCTATATTCCAAAACATACAATAAATGTCTGATATTGAAAAAGTCCAAATATGTATATGCTTCAGTGTTAACTAATATATTTTTATATGTACATATGTTCATATATGTATATTTACATATGAATATGTGAATAGGTACATATTTTATATTTGCATATATACATACATATATATGTATGTATATGTATGTGTGTGTGTATATATATATATATGCATATACACTTGTAATTAAGAATTTGAGACAGGGTTTTATTATGTATCCCAGGATAGCTTGGAACTCCTAAGTAGACCAGCGTGGCCTCCAACTCAAGAGATCAGCATGTCTCTGGCCTGTTGAGTATTGGGATTAAAGGGGTGTGCCACACCTGGCTATGATAGTTTTAATTTGTAAATTGGGCACAGTAAAAAATTAGTTATATGAACAATCTTTATGTGACCTTCATGTGTTTTTAAATGCATTTCATGAACTGTGATCTAGAGAATCAATCATTGAGAGCCTTTGTATAATTGCTTTTGGAACCAGGGAACATAGGAGATTGCTTTGTGCCATTGTATTTTAGCTTTTAGTTGGTTCATACATTCAGAGAGATATTTAACTTAAATCCTACTTTCTAGTAACCAATACCCCTCTCCTAAAGAAATTATCATAGCTAGATGTCCCAAAATATGGAACCATTTTATATTTTGAATAAAATACTGTTATTCTTATATTGTTTTTTTAAAAATGAGGTTCTTTGGAGATTGATACTAGTTTTGTACCAAGTAAAAACAGTTTTGACTATAGCTTTTGTGATTTAGGGAAATCAGCGGGTTCTGTAAAATCTGTGGTTACGGTAGCTGCGAAAGGTAAAGCTTCTATCAAAACAGGTAAGACAACTGAGGGAGAGAGGCTTATTAAATTTTATGAATTTAAAGAATACATTATTGAAAGCAAGTTTAGAATTCATTCATTAATTTCTAGTATCTAATAACATTGAAAATTTTGTAGGAGTCTTCAGTATTTAAAATTTACAATATAGGATTTTTATTTGTTGGTACTATGTTCTATGTCTTCTGTACCAATATATATTATGGTTATACACTATATTTGCAAGTATATAACTATATGGCCTGACAGTAATATGTTGATAGGTTTCTCTGTCATTGTCCCCTTTAAATGTTTCCCTCTTTTGCTCTTGTTGTAACTGTTATTTCCACTCCCTTCCACAGACTTACACAGTTCATTTGATGCTTGTTACTTTAAAACAGATTACTTTCCCAGATAGAGAAAACACTTTTTAACATAAATGTTGTACATTGACCTTATCATGGTCCTATAATAGTATCTTTTCTAATAGTTTAGAATCAAGAACTTTCCTGACATTTCAAAATATATACTTTTAATTCTATATTTCACATGAGAATTAAACTTGGGACTAGTTTAAGACCAAGGGGAGAAAAATGTTTCAACTTAAATTTGCTTTTAATATTACTTATAAAAATTTAAACATAAATATGTAATAAATTGCTATTCAGATAAGGTTGAGCTATTTATTTCTGATATATTAATATGAAATATGCAAAATGAGTAGGCTCTTAATCTTAGAGTAATGGTGTAATTCTACTTTTAAAAG
Seq C2 exon
CAAAATCTGGAAAGAAGTCTCTAGAAGCTAAAAAGTCTGGGAATATCAAAAACAAAGACTCCAATAAACCCGTGACTGTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030016-Zfml:NM_001166371:11
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.563 A=NA C2=0.971
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000109466





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000032088, ENSMUSP00000087024, ENSMUSP00000087024f2666A, ENSMUSP00000109465, ENSMUSP00000109467
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr2:71398773-71399558 
ALTERNATIVE
HsaINT0187940
(ZNF638)
Human
(hg19)
chr2:71625903-71626688 
ALTERNATIVE
HsaINT0187940
(ZNF638)
Rat
(rn6)
chr4:115652382-115653165 
ALTERNATIVE
RnoINT0168500
(Zfp638)
Cow
(bosTau6)
chr11:13182149-13182925 
LOW PSI
BtaINT0165866
(ZNF638)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
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"