Special

MmuINT0003964 @ mm9

Intron Retention

Gene
NA
Description
NA
Coordinates
chr9:88462346-88465924:+
Coord C1 exon
chr9:88462346-88462438
Coord A exon
chr9:88462439-88463451
Coord C2 exon
chr9:88463452-88465924
Length
1013 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
TTGTATGCTTGTCTTTTTAGTAT
3' ss Score
8.89
Exon sequences
Seq C1 exon
GGCAATGCATCCCTAAACCTGAGTTGATCTTTAAATTGGAACAGGGAGAGGAGCCATGGACAGCAGAAGAACCTGCAAACAAGACTCTGCCAG
Seq A exon
GTTGGTTGTCAGTACATGCGGATGGGGAGACTATGTGCAACAAAGGTTGGCCATATCATCAGTTTATCCCCAAGTTCCATATTTGAGGGCTCAAACATGTTTGTTATATAGTCTGTAAGAATTCTCTTACATGTGTTCCTGCATTTCAGTTTGATGAAATAGTTCTTTTGTTTTGTTTTGGGTTTTTTTTTTTTTAATTTTTTTCGAGACAGGGTTTCTCTGTATAGCTGTGGCTATCCTGGAACTCACTTTGTATACCAGGCTGGCCTCAAACTCAAAATCCACCTGCCTCTGCCTCTGGAGTGCTGGGATTAAAGGCATGTACCACCACGCCTGGCAATTTGATAAAATATTTCTTAGACTCTCCCACCAAATCCCCATTAGCTTACTTCTGTAATTTGATGTTTTTTTCCTGGTACTTCTTTGTTTCATAGTTTCAATTGCTTTTTGTACTCTAGGCTCATGGGGATTTTTTTCAGATATATTTCATGTGCTTGCTTTTGTTTTAGCACATTCTAATGAGGCAGATTTCAAGTGCTGGTTCTTGTATATTTATATAAATAAAAATGTAAAAGTAATGTCCTCATAAAACTGGAAAGCTTCTGTAAGGCAAAGGGCATAGTCTATAAGACAAATTGGCAACCTACTGATTGGGGAAAAAAACCGTCACTAACCCCATATCTGACAGAGGGCTAATATCCAAAATATATAAAGAACTCAGGAAGTTAATCACCAAAAAACCAAACAACCCAATCAAAAAACAGGGTATAGCACTAAAATGAAAGCCGGGCATGGTGGCACACGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGCAGATTTCTGAGTTTGAGGCTAGCCTGGTCTACAAAGTGAGTTCCAGGACAGCCAGGGCTACACAGAAAAACCCTGTCTCAAAAAACCAAACCAAAAACAAAAAACCCAACCCCCCCCCCCTGCCCCCAAATTCATAGAAACTACTTTTGTTTGTTTGTATGCTTGTCTTTTTAG
Seq C2 exon
TATTCTGCAGTGTGGATGGCATAATTGAGACCAACCAGAAGAGTCGAGAGAGACATTTGTGGCAAGTTACTGCCAGTGGCCACAATAGAGAAACTGAGCAAGCACGTGGACCAGAAGACACTTTTTATTTATACTCCATGAATATTTCAAATTTTGTTGTAAATAATAGAAACTGTTCAGGAGTGAAGCCTGAGGAGTTGAATGGATACCTGAATAGATGTCACCCTTTGGAGACTCATGAATTGTGTATTGTAGAGCGATATAATGACTGTTGTGTAGCAGGGAAATCTGTCAGATGCCCTGAGCAGTTGGGTCAGTGTTCTAAGATTGAAACTGGACAGCAGGATTTCGAATATATCAGAGAAAGGAAAGATACAAAGGAGGGAAAACTATTGAAAAAAATTACTCCATCTAAGAGACTTCAAGTGGGACTGACTTCTTGTAAGCATAGTGAGTGTGAGCCACTTTCTGTTCAGTCAGATGTCATGGCTAATGTAGGGAAGGCAACTTTTAGTAAGAAGTATAACCTCACTAAACACCAAGCAACAAACTCAGGGAGAAAATCTTGTAAATGCCTTGAAAGTAAGAAAACCTTTCCCAGTGAATTAGACATTATAGAACATCAGAGGACACATAACCAGAAAAAAGACCATGTATGTATCCAGTGTGAGAAACCCTTTAGCACTAAATCTTCCCTTACTATTCATCAGAGAATTCACACAGGAGAAAAGCCCTATGGATGCAGTGAATGTAATAAAACCTTCAGACAAAAGTCAGCTCTCATTGTACATGAGAGGACTCACACTGGAGTGAAACCCTTCGAATGTTGTGAGTGTGGTAAAGCCTTCCAACATAAGTGGTATCTCAAAACGCACCAGAGAACTCATACTGGGGAGAAACCGTATGCGTGTATAGAATGTGGAAAAGCCTTTCTAAAGAAGTCATACCTCAAAATGCATCAGGGAACTCACAAGAGTGATAAACCATATGAATGTGAGAAATGTGGAAAAACCTTCCATAACAGGTCATACTTCAACATGCATCACAGAACTCACACGGGTGAGAAGCCCTATGCATGCAGTGAGTGTGGAAAAGCCTTTTACCAAAAGTCAGACCTCAGGAGGCATCAGAGGATACATAACAGTGAGAAATTACATGAATGTAAAGAATGTGGAAAAGCCTTTCAAAATAAGTCATACCTCAAAACTCACCAGAAAGTTCACACAGGTGAGAAACCATATGAGTGTAAAGAGTGTGGGAAAGCCTTTCAAAACAAGTCATATCTCAACAAGCATCAGATAATTCACACAGGTGAAAAGCCCTATGAGTGCAATAAATGTGGGAAAACGTTTCAGTGGAAGTTAGTCCTCAGCAAGCATCACAGAACCCACACAGGTGAAAAGCCCTATGAATGCATTCAGTGTGGAAAAATGTTTGGCTACAAGTCGTCCCTCATTGTACATGAGTTGATTCATTCTGGGGAGAAACCTTATGAATGTAATGTTTGTAGAAAAACCTTTTCACAGAAGTCAAACCTAAGCCGGCATCAGAGAACTCACCGACATGGGGAGCTATGATAGGAACAGGTATGGATGCTCAGCAGCCAACTCACTGACTTGGGGAAGACAAGATGAAGTCAAGGACGGGTCTGCAGCCTGTGTTCCTCTTGGGGTGTCAGACACTGCTGCATACCAGGCTGGAAGCGTGAAAACAGTCCAGGAGGTGAAGGAGCTTGGTCTGGTTTGGAGTGAGTGACAGCGGGGCAGGAGAAGAGAGAGGTCTTCAGGAGTTGTAGTGTTATGGCTCCTTTAGGTGAAGGCCTTGTCTGAGGCGATCTTTAATGGAGAAGCTCGCTGAGATGATCTTAGCTTGTTTGTATTATGTTATTGGGGGTGGATAGGCTTTATTCTGGGTGAACAAGAGATGATGTCATTTTGGGGAAGGGTGTGAGAAACTCCAGGAAGGAAGGTCATTGGCTGACGGCTGAGGTTATTGAGGTGCCTCATCAGCATGGCAAGGTGTTCCAGGTGCTGTGCTGTGTGACTCACTGCCTACGGCCACATTAGTTACGGCTCATGATTACAAGCTCCAGAGTGGAGCATGGAGGCAGGGAGGGGGCAAGCCTACTCCTGCTGTCTCAGATCTCCCAGGTTCCCAGAGTTTGAGCATACTTCCACCTCACCAGTCTCATGCCCATCTACTGGCATGGTCCACCTGCCCTACATCCAGATAGACCTTTAAGCCTTAGAATGCATCAAGAATAACAAGCAAGAATCCACTCCAGGGGAGGGGCTGGAGAGATGGCTCAGCAGTTAAGAGCACTGTCTGCTCTTGCAGAGGTCCTGAGTTCAATTCCCAGCAACAAAAGAGGGTGTCTGATGCCCTCTTTTGGTGTGTCTGAAGACACTACAGTGTACTCACAAATAAATTTTTTTAAAAAAAGAATCCACTTCAGTTTGAGTAGTGTTCTTTG
VastDB Features
Vast-tools module Information
Secondary ID
-4930422I07Rik:NM_001163061:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
NA

							
A:
NA

							
C2:
NA

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000124007





     
                   









    
Main Skipping Isoform:
ENSMUSP00000125017





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000125325
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr3:75739346-75741275 
ALTERNATIVE
HsaINT0188234
(ZNF717)
Human
(hg19)
chr3:75788497-75790426 
ALTERNATIVE
HsaINT0188234
(ZNF717)
Rat
(rn6)
chr8:96377230-96378777 
LOW PSI
RnoINT0168760
(Zfp949)
Cow
(bosTau6)
chr7:64236420-64236553 
Chicken
(galGal4)
chr16:480152-480254 
Chicken
(galGal3)
chrUn_random:62785524-62785594 
GgaINT0004823
([1])
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CCTGCAAACAAGACTCTGCCA

				
R: 
AACACTGACCCAACTGCTCAG

				
Band lengths: 
343-1356

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






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