Special

MmuINT0180099 @ mm9

Intron Retention

Gene
ENSMUSG00000022201 | Zfr
Description
zinc finger RNA binding protein [Source:MGI Symbol;Acc:MGI:1341890]
Coordinates
chr15:12075904-12079474:+
Coord C1 exon
chr15:12075904-12076151
Coord A exon
chr15:12076152-12079282
Coord C2 exon
chr15:12079283-12079474
Length
3131 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
GTACTTTTTGTTCAAAACAGACT
3' ss Score
6.62
Exon sequences
Seq C1 exon
GTACATCTTATTCAGGTTATGAAGCAGCCGTATATTCAGCTGCGTCTTCCTACTACCAACAGCAGCAGCAACAACAGAAGCAAGCAGCAGCAGCAGCTGCTGCTGCAGCAGCAACAGCTGCCTGGACAGGGACCACCTTTACTAAAAAAACACCATTCCAAAATAAACAACTGAAACCAAAACAGCCTCCCAAACCACCCCAGATTCATTATTGTGATGTTTGTAAGATCAGCTGTGCTGGACCACAG
Seq A exon
GTACTTATATTGTGTATTTACCATGAGTCTCCGTGGTTATTTTTCATAATTGAGTAGGGTTGATATTCTAACTCCTGTGCCTACAAAGCACATTCACATCTGTGTATTCTACACTCAGCAGCTCACCCATAAATCAAAAATGTGCATGTGGAAAACTACATTGGTGTGGAGTACCTACACTTTTTTTCCCTATTACTTTCTAAACTGAACAGTAAAACTGTTCAGTAAGATTTACAACAGGTATTACAAATAATCTATAGATTTTAATGTATGCAGGTGAAATAGATTATGTGCAATAATTTTGCTATTTTATTTAAAGAACTTGAGTGTGCTTGGATTTTGCAACAATTTCCTGCAGACACTGAGAGATGGCTGTATTTCACTAAACATTTCTTTGAAAGTCGTTTGTGTTGAAACACAAAAGCAATAATCAGGAAAACTGTAAAAGTGGCTATAAATGTTTGAAAAATAAGGAAATTGAGCCCTCCACCCATTCTAGGGTGCCTCCTTTGCTTTTTATATAAAACTTTAAAAGATTTTTAAAATTCCAATTATAAATTTTGATTGTATTTCTAATGAGTCTATTTTGTACATGTTTTATAGAATGTAACTTCTATAGCTCTCTCCACAAGGGGACTGGGAACATTGGAAATGAGAAAAGTTAAGAAAGATGACCTCCCGTGCTGGGGATACAAGGCAGTCAGTGAAGTGCTTGCCTCTGTTCTGAGCCGTAGACCCATCCCCACAACTACAGAATCAGACATGGTAGTTGCTGCACGCCTGTAATCCCAGTACTGAGAGGTAGAAACGTTTATTGTTGTCCTTGGCTATATAGTTAGTTTTAGGCCAGCTTTGGTGAGAGACCCTGTTTTCTTCTACTCACCTAAAAGAAGATCAACCTATGACAAATATGAGTCCTTTATTATTTTTTTCTTGTCATGGTTCTACCAGCTATACCTTAAAATGTTTGTTTTAAAGCATGGGTCTGTTAATGAATTCATCCCTTTCTAAACTCCACCTCTTTTGACTATTAAGAGAGCCCTGTTTTGTCAAGTATGGGGGCGTACACTTGTAATCCCAACAACTTGTACAGCAAAAGTAGGAAGATTTCACACGGTCAGCCTAGACTGCAAAACAAGAGCCTGTCTTAAAAAATGTTATGTAGGAATTTACATAAGAATTGGCTAGAGGGATGGCTCAGTGGTTAAGAGCACTTGATCTTATAGAAGCCTTGGGTTGGGTTTCCAGAGCTTTGTGCTAACTCACTTAACCACAGTTCCAGGGGTGTGGTGCCTCTTCCCTCTGAGGGTATCAGGCATGAATGCTTTTGATTTGTTTTCTGAAATTTTAGGGCTGGAGAGATGGCTCAGTGGTTAAAAGCACTGACTGTTCTTCTGATGGTCCTGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAATCATCCATAATGAGATCTGACGCCCTCTTCTGATGCATCTGAAGACAGCTACAGTGTACTTAGATATAATAATAAATAAATCTTTCTTTAAAAAAAAATTTTAGCAGCTTGGCATATAAAAAGCATATTTGGGGAGAGTAGGTCAAATTTAACTCTTCACATATTTCTGTTTCCAGCTCTATTCTACCAGTATATCTCTCCACCCCCTTTTGAGACAGAAGACAGACAGACACAGGGTCTCACTATGTAGTGCTTGGCTCATCTTCCCTCTACAGCACCAACTCACTGTGTATGTAGACCAGGCTGGCCTCAAACTCACAGAGATCTGCCTGCCTCTCCTCCCAGGTGCTGGGATCAAAGGCGTGTGCCATTATGCTTGGCTTATATGTACTCTTTAATTTATCGGATTAATTTTGTTTTTAATACATAATCCTGCAATATTTTTTTTTGGTGTTTTCTGAATTATTGACACCTACTTAGTATTAAAATATATGTACTCGTATTCATTCTTAAGCAATCTGTTTAACTAGATTAAATATTAAAGTGCATTCAGATTTTCAAATTTAAATTTTATAAATATAACTTTTTATAAAGAACTACTATCATGCAGTAGTTTTGCAGATTAATTCTATAATCAGACTTGTGTAATGATTTTTTTAAGTTATTATTTTCTGTCCAGTGTTATACACAAGCAAAAAAAAAAAATAAAAGTTCTTAAAACTATGGGCAGTTTATCTTATATATAGTCTATTTATGAAAGTACTTTTGTAATTCAAAGCTATTGGGTTAAAAACAAAACAGCTCAGTAATGTTTTCCAAACAGACTTTCACAAGTTTGATCCCCAGAAGTCATGTGTAAAAGATGTCTCATGTTGCCTGAGCTTAGAATCCTAGTGTTCATTCAGAAAGCAGGGATAGTCAGATCCCAGGCACTCACTCCCTGGATGGTCTCAGGAAAACCTTGCCTACAGAAAGGCTGGGCTACCCTCTCAAACAGAAACATAGGTTGTGCTTGCTCTGTTTACTCTTCAGCACACACACACTCAAGCATGTGTACCCATACATAGAATATTGAAGAACATTGTTCTTAGAAGGTTAAAGATGTAGTCCCTGAATTCAGTCCTTGGTACCAAATAGCAAACTATTGTTAAATAACCTGCAGAGAATTACAGATCATCCATACAATCTCCCCTGTTCTTAAGTGCTTTGAAAATAGCAGATCTCATCCATGCTTTCCTCATTCTCTCCCCTTTTATTTTATTTAATTTATTTTGAGACAGTAAGTATACTATTACAAAGCCTGGGATAGCCTTGAACTCAATGATTCTCTTCCTCAGCCTACTGAGCACTTCTATTACAGGTCTGCACCACACACTTGTTGGATTATTTCTTTTGTTTTGGGCATCTGTTCGTTTGGTTTTGGTTTGTTTTTTTTTTTTTTTTTTTTTTTGTTTTTTTTTTTTTTTTTTTTTTTTTGAGACAGGGTCTCACCATGTAACTAGCTGGCCTGGAACTCACCATGTAGACCAGGCTGTTCTCAAACTCAATGCAGCTCAGTTCTGCCTCCTGAGTACTAAGATTAAAGGCATGTGCCAGTCAGCTTATGATCCCATTTTTAAATGAGTGTTAGAGGTCTGAAAATTGAATAGAATGTTATAGAAAGAAAATTTGTACTTTTTGTTCAAAACAG
Seq C2 exon
ACTTATAAAGAGCACTTAGAAGGACAGAAACATAAAAAAAAGGAAGCCGCATTGAAAGCCTCTCAAAATACCAGCAGCAGCAACAACTCAACTCGTGGGACACAAAATCAGCTACGTTGCGAGCTCTGTGATGTGTCTTGTACAGGAGCAGATGCATATGCTGCCCACATTCGTGGTGCTAAGCATCAGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022201-Zfr:NM_011767:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.173 A=NA C2=0.578
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF128742=zf-met=PU(52.0=15.7)

							
A:
NA

							
C2:
PF128742=zf-met=PD(40.0=15.6),PF128742=zf-met=WD(100=39.1)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000118911





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000022814, ENSMUSP00000117207
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr5:32404098-32406773 
LOW PSI
HsaINT0185604
(ZFR)
Human
(hg19)
chr5:32404203-32406878 
LOW PSI
HsaINT0185604
(ZFR)
Rat
(rn6)
chr2:62179255-62182216 
LOW PSI
RnoINT0168807
(Zfr)
Cow
(bosTau6)
chr20:41306999-41310439 
LOW PSI
BtaINT0164432
(ZFR)
Chicken
(galGal4)
chrZ:9632098-9633079 
LOW PSI
GgaINT0063928
([1])
Chicken
(galGal3)
chrZ:9123545-9124526 
LOW PSI
GgaINT0063928
([2])
Zebrafish
(danRer10)
chr5:40536693-40537037 
ALTERNATIVE
DreINT0177940
(zfr)
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"