Special

MmuINT0179326 @ mm9

Intron Retention

Gene
ENSMUSG00000053600 | Zfp472
Description
zinc finger protein 472 [Source:MGI Symbol;Acc:MGI:2385049]
Coordinates
chr17:33113172-33116156:+
Coord C1 exon
chr17:33113172-33113229
Coord A exon
chr17:33113230-33114103
Coord C2 exon
chr17:33114104-33116156
Length
874 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
ACTCTTTTCATTTTTTGCAGAAC
3' ss Score
10.65
Exon sequences
Seq C1 exon
GGAAAACAGAAGAAGAAGATACTGAAGAAGAGTACCAAAATCCTAAGGGAAACCTGAG
Seq A exon
GTAAATTACCCTCTGGAAAAGATTTGGACCAAGTATTTGGTGGGGATAGGAAATCTGAGCATCTTTGGTAAATACATTGAGCTTGAGCACTTAGAACAATTGAGAGAGTCCAGCAGCATAAAGCTGTATAGCATTTTCCTGTGATTCATTTTACAACTTCCCTTTGTGCACAGCATTTCAAAATATTAGTCATGCTATACTTAGGCTTGAATACTTAGGGTGTGTGTCAAATAAAGTGAATTTTAGGCTTAGATTGAGACTCAACTGTGCTAAATCACTTAAACAGTTATTCATTTATTTCAAATTCCATAATGAAAGCTATATTGCATTATAAATGTTCAACTGTTATCTGTGGCTTGGTGGCATATATAATTAATGTTTGTGAAATGCCTGAAAGTATTATAGAACTTATTTGATAGTATGCCATCCTCAGGTCCTCTAGTTAGATGTTCAGGCATTTAAAGTGAATAATGATTCTCTTTTTTAAACATTTATTTGTGTCTGTGTGCATTGGTACATGAATGTACATAGTGGTACAGTTGTGGAGGTCAGAGCATAACCCTCTGGAGTGGTTCTCACTGTCTATGCAGATCTTAGGAATCACCTGTTGTCAGACTTCCCAGCAAGCGCCTTTATCTGCTGAGCCATCTTACCTCCCCAAAGTTTATACATTCTAACGAAAATTAAGTCAATACTCTTATTTCTTAACTTGGGGAAAGGGTCTTTCTGTATGGTACAGTTGGGCCTCAAACAGGCATTTACTTCTCCTACCACTACCTCTTAAATAACACAATCATGAGCCACAGCACATAGCCTGCAGTACTTCCTTTGACTAACCAAAAAACTATAGTATTACTCTTTTCATTTTTTGCAG
Seq C2 exon
AACCCTGATGGTTGAGAGACTCTGTAAATATGATTATGGTAATCAGTATGGAGAAACTCACCAACAGAGTCCAGAGCATGTTGCGAATGAAAAAATGCCTCCAGCTATAACAGAATGTGAAAGAGACATCTGTACTCATTTACCCTCAGACATGCACTTCAAAGGTCAAACTGGAAAGAAATCATGCCAGTATCAAGAACATACAGAGAAGGCTTTGAAACATAAGAACTGTTGGAAGGACTTCACTTATTCTGAGTTGCTTTGGATGCATAAGAGCCCTCCCATGAGACAGAAGCCCTATGAAGATAAACAAGGGACTGAAGCCTCTAGGAGTTTCACTACCGATCATGATTATGAGGGAGCTTACACTGAAGAGAAATCTTATATTTGTAAACAATGTGGGAAAGCATGGAGTGATTCCTGTAGCCTTCTCTGGCATGAAAGAAGTCACATTCAAGAGAAACGTCACACATGTAAGCAATGTGGAAAAGCATTTAGTCGTCCCTCACAGCTTCACAAACATGAAAGGATTCACACTGGTGAGAAACCTTATGTGTGTACACATTGTGGGAAAGCCTTCATTGATCGCAGAACCTGTCACAACCATGAAAGGACTCACACTGGAGTGAAACCCTTTGCCTGTAAGCAATGTGGGAAAGCATTTCTTCGTTCCTGCCAACTTCTCATCCATGAAAGAATCCATACTGGAGAGAGACCTTTTGTGTGTAAGCATTGCGGAAAAGCTTTCACCTATTCCAGTGCCTGCTATTATCACGAAAGAATTCACACTGGAGAGAAGCCCTGTGTCTGCAAGCAGTGTGGGAAAGCATTCAAATGTTCTGCGTACCTTCACATACATGAACGATCTCACAGTGGAGAAAAACCCTATGTGTGTAAGCATTGTGGCAAAGCCTTTGCCTATGCCACCGGGTGTCACAAACATGAGAGGATTCACACAGGAGAGAAACCGTATATGTGTGTGCAGTGTGGGAAACTATTCACTTTCCCCAGATCCCTTCACATACACGAGCGATCTCATAGTGGAGAAAAACCTTATGTATGTAAGCAGTGTGGGAAATCCTTCACTCAGGGAACTTCTTTGCGAAGACATGAACGAATTCACACTGGAGAAAAACCTTATGTATGTAAGCAGTGTGGGAAAGCCTTCATCCAACGTGATGATTGCTACAGTCATGAACGAACTCACACAGGAGAGAAACCATTCATGTGTGTTCAATGTGGGAAAACATTCACCTTTTCCAAATCTCTTCAGATACATGAAAAAAATCACACTGGAGAGAAACCCTATATATGTAAGCAGTGTGGGAAAGCGTTCACCTGTTCCACATACCTTCTCAGACATGAACGAACTCACAGTGAGAAGAAGCTCAGTGGCTAATATTTCTCGCACTCTAAATCATGGGAATGTCTGATGTCAACTTTTATTTTGAGGTATGAAGGAAAATGGAGAGCCACTGTAAGATTATGAGAAGTGCAGGAGGATAATTTGGGTCTCCATGCTTTCTGTAAGATGGCAACCTGTACAACAGGTTTTGCTGCTGTGTGTCTTTTGTTCCAGTAATGAAAAAGTAAAAGTTATGCAATTACAATATTCAACGAAGCCTGTGCTGTTTACTGGGTTTGAACACAGCTTGGGAAGTTTATCTACCAATTTCAACTAAATGAAATTGTCTGTAAATATAAAAAAGTTGCATTTTTTTACCAATAAGATAAAATTTATGACAGTATCTCATGTGGTTGAGTCCTATGAAAGAGATATGAAGATACTGAAGGTTAATTTGTGTTAAATATTTCTGAAAATAAACTGTGAAAGTGATACGGTAAGTTCTGAGTATTTTTAAAAACCTTGATTATTTAAATAAAGTGTGTTTTATTTTGCTGAGTTTATAAGGTCAGTGTCTCACAACAGAACATGTCTACCAAAGTAACTCACCAAAAAACCTAAAACATTAGTCTAATTCACAAGACTGCCTGTGCTCTCACAGAAATTTCCTCTATTACATGAAATTAGTAATAAACATTTGGAAACATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000053600-Zfp472:NM_153063:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.700 A=NA C2=0.105
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0135222=KRAB=PD(0.1=0.0)

							
A:
NA

							
C2:
PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.1),PF079757=C1_4=WD(100=11.6),PF134651=zf-H2C2_2=WD(100=4.9),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=4.7),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=5.6)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000036514





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr19:19713090-19714090 
ALTERNATIVE
HsaINT0186220
(ZNF14)
Human
(hg19)
chr19:19823899-19824899 
LOW PSI
HsaINT0186220
(ZNF14)
Rat
(rn6)
chr1:98228633-98229153 
LOW PSI
RnoINT0168657
(Zfp788)
Cow
(bosTau6)
chr7:14013956-14014337 
LOW PSI
BtaINT0166117
(ZNF791)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr3:61294302-61294491 
LOW PSI
DreINT0142293
(si:dkey-111k8.1)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
AGAGTACCAAAATCCTAAGGGAAAC

				
R: 
AGAGGCTTCAGTCCCTTGTTT

				
Band lengths: 
358-1232

			

		

	





	
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"