Special

MmuINT0036590 @ mm9

Intron Retention

Gene
ENSMUSG00000039205 | Ciz1
Description
CDKN1A interacting zinc finger protein 1 [Source:MGI Symbol;Acc:MGI:1920234]
Coordinates
chr2:32231005-32231642:+
Coord C1 exon
chr2:32231005-32231092
Coord A exon
chr2:32231093-32231528
Coord C2 exon
chr2:32231529-32231642
Length
436 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
GCCTACCTGCCTTTCCCCAGGTT
3' ss Score
10.07
Exon sequences
Seq C1 exon
AGATCCTCCGCCCAAACGCTGGTGCAACACCTGCCAGGTGTACTACGTGGGAGACTTGATCCAGCACCGTAGGACACAGGAGCACAAG
Seq A exon
GTATGAGAGTCACTCATGCTGCGAGGGTCCCCATGTGGGTGGGACACATCCTAGCCGGGGGTTGGGGTGGGGTGGGGAGGGAGGTCTATTTTTGTCTCCACTTGACTGCCACTTATGTGACTTCTGGTGAGTCAGTCATGTTCCTCTCTGGGCTTTCCTGTGCCCATCTGTTCAGTGTAGGCACCTGCTCACCCTGCTATTTAGCCCCTAGCTCATTGGGGGAGTCTTTGGCGGCTGTCCCCCTCTTATTCTGTCTCTGTGGCCACCCGCCATCCCACATAGTGAAGAGAAGTGGTTTTGCATGTCCCAGTGCAGGGGCGGAGCAGAGCTGGGCCTGTGGGTTTGAGAGGTGAGGTGGTCTCATTGAGCCACTGAGAGGGTGGCTTGTATCTAGGGGTGCTCCAGTGCACCACCTGGCCTACCTGCCTTTCCCCAG
Seq C2 exon
GTTGCCAAACAATCCCTGAGGCCCTTCTGCACCATATGCAACCGTTACTTCAAGACCCCTCGAAAGTTTGTGGAGCACGTGAAGTCCCAGGGACACAAGGACAAGGCCCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039205-Ciz1:NM_028412:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.128 A=NA C2=0.254
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF049887=AKAP95=PD(0.1=0.0)

							
A:
NA

							
C2:
PF121713=zf-C2H2_jaz=WD(100=71.1),PF052857=SDA1=PU(12.3=52.6)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000048428





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000048428f3938A, ENSMUSP00000048974, ENSMUSP00000108957, ENSMUSP00000108958, ENSMUSP00000108960, ENSMUSP00000108962, ENSMUSP00000108964, ENSMUSP00000117937, ENSMUSP00000120019
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr9:128169520-128170019 
ALTERNATIVE
HsaINT0035576
(CIZ1)
Human
(hg19)
chr9:130931799-130932298 
ALTERNATIVE
HsaINT0035576
(CIZ1)
Rat
(rn6)
chr3:11404671-11405088 
LOW PSI
RnoINT0036656
(Ciz1)
Cow
(bosTau6)
chr11:98809675-98810169 
ALTERNATIVE
BtaINT0038720
(CIZ1)
Chicken
(galGal4)
chr17:5093955-5094564 
Chicken
(galGal3)
chr17:5719113-5719722 
LOW PSI
GgaINT0124560
(CIZ1)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GATCCTCCGCCCAAACGC

				
R: 
CTCTTGGGCCTTGTCCTTGTG

				
Band lengths: 
201-637

			

		

	





	
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






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