Special

MmuINT0005452 @ mm9

Intron Retention

Gene
NA
Description
NA
Coordinates
chr9:20306485-20309622:-
Coord C1 exon
chr9:20309496-20309622
Coord A exon
chr9:20306566-20309495
Coord C2 exon
chr9:20306485-20306565
Length
2930 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
ACGTGTTTCTGTATATGCAGGAT
3' ss Score
7.64
Exon sequences
Seq C1 exon
GATTCAGTGACCTTCGATGATGTGGCTGTGGAGTTCACCCCGGATGAGTGGACTTTACTGGACCTGACTCAGAAGAATCTATACCGAGAGGTCATGCTGGAGAACTACGAGAACTTGACTTCAGTAG
Seq A exon
GTAAGGCTGCCAGCATTCCTCCTTACCTTTTATGGAACAGATACATGGTGCATGCTTCTTAATGTGTAAGAGACTGACCATGTTAATTATGAACTTAGTGGAATGACAGGTCAATTTTTAAATAAAACTTGTGTGTGGGGCTGGGGTCAAAGGGCTTACACCTTTAATCCCAGCACTTGAGAGGCAGAAGCAGAGGCAGGTGGACCTCTTGAGTTCACAGCCAGCCTGTCTATATATCTAGGGCTGTATAATAAAGTCAAACTAAAAAATAGCTTTTCTAATTCATGTGTATGTGTGTGTTTTTATACACGCGTTCACGTGCAGAAACTATAGAAGGCACTAGGTGTTTTCTTCTATCACTACCTATTCCTTTGAGGCAGGCTTTCTCCCTGAGCTTAGAGCTCTTGTGTCTTTCAGACAGTAAGCCCCATCAGTCCTCGGCATCTACCGTAGCATTGTAGAACAGGCACATTCGAGGCCATGCTCGCCTTGTTCTGAGGGTTGCTGAGCTCAGGTCCCTGTGATACTGTGATACTGTAGCAAATGCTCTTAGCCAGCAAGCCATCTTCCCAGCTCCAACAAATCAAATTCCTGGCATAATACGTAATGATCTACAGTGGCAAATCTTTTTTATTTTTTCCTTTTCTCTTTCCTCTCTCCCTTTCTTTAAAAAAATTCTTTTTGTTTTTTGAGATTATAATACAACTCCATTTCGCCCTTCCCTTTCCTCTCTCTGTATCTCTCCCTATATCTCCTTCCTCTCATGGACCCTCACTTTCTTTCAAGTTCATGGTCTCATTCCATTCATTGTGTGTTTATGTTCCTAAATATATAAATATAATCTCCATAGTTCACGTAGTTTTCCTTGTATGTATGTTTTTAAGGCTGACCAGTTGGTATTGGATGACCAGTTGGCATGCTCTTCCCCTGTGGAGGTTCCCCCCCCCCCCCCCAGCATACCTTATTTGTCTATAGTTCTCTGTGTAGGGGGAGGCCTCTTGAACTTCTCCTTGCCCACATTAGCATGTCTATTAGTGTCCTCCTTGCCCACATTAGCATGTCTATTAGTGTCCTCCTTGCCCAGCTCCTATTTAAGCTGAGACTTTTATGTAGTTTCTGACATTACAAAGAGATAAAACCTCACAACAAACTCCTTGATCCTCTGACTTTAAAAATCTTTCCACCTGCTTTTCTAAACTGTGAGTTGCACTGTACATGTGCCCATCAGGACCAGGCTCTACAGCTTTGCCGTTTGATCCACTGTGGCTCTCTGTGGTAATTTCTGTCTGTTACAAAGATGAGGGATGAGGACTACACTTATTTGTGGGTGTAAAGATGCATATTTAGAATGTAGATGGATTACACTGGTTTAGTACGGTGTGGATTGTAGGTTCTCCAAGATCTATGGCTTTTGGCACTAGGCATAACTTCCCTTTTGTCAAGTGGCTCTTAAGGCCAGTTAGAGAGCTGTTGGTTATGTGTGTCAGTTCTGTATCCTTACGGTTATTATGCCATGCTGGCTGTTGTGGTTCAGGGACGTCATAGCTCGGCTGGATTCTTGTTTGCTTCCCTGGTACCTGCAAACTTCATGATTTGTTTGTTTGTTTTTTTTTTCTTCACAGCTGAATAGTATTACATAAGTCTTGTGTACCCCACTTTCACTCTGTATTTGTTGATTGGAGCACTTTTAGGGTTGTTTCCAGTCCCCGGCTGTTGTGAACAGAGCAGCAGTGAGCAAGGCTGAGCAGGGGTCTGTGGAGTCAGATTTCAGGTCCTTTAGGCATGTGCCAAGGAGCAGTGGTGCAGCTCAGTCATACGGGGGATTCATTTTAGCTTTCTGAGAGTTCTCTACATTGATTTCCACAGTAGCTGCACCACTTTGCAGTTCTATCAACAGTGATTGAGGGCTCCCTTATCCCTCGTCCCCTTCAGTATTTGTTACTGGTTAATTTGTATCTGTATCATTTTGCATGAGGTAAGATGAAATCTCAAGGTTGTTTGATTGACAATTTCCTCCTCCATGCTAAGGATGCTGAGCATTTAAGGAGATGTTTTCCTGTGCATTTTGTCCTCATTTCCCTTGTCCCTAGTCATTCCAGACCCTCCCCAGTGATGGACATTAAAAACATTTCTCAGCCAGGATTTTCTTTAGAGAACTCTGAATCTTTTGTTTGTTTCTTTTCATTTTTTTCTCCTTGTTTTTTTGTTTGTTTTTTGTTTTTGTTTTGTTTAAATACACTCTATTTACATAGCTCAGGCAAGCCTTGAGCTAAAACTCAAAAATTGCTGCCTGCCTCTGCTTCCCAAGTGTTGGAATTAGATGTGTGTGCCGCCACGTCCTTTCCCCTTTTCTCTCCTGTTTCATTTTTCCTTCCTCTTTGCACTTCTTCTTTGCCCTTTCCCCCTTCACTGTGACCCTATATTTGGAATCAGAATCTTTCGTGTGTAGTCCAGGATGGCCTTAAACTTGGAAGTCTCTGTCCTCATCCTCCCAAGTTACAGGATTTCAAGTTACTTACACCCCTGTGTCCAACATAGTAGATTTGTTTTTGTCAAGAGTGCATGCGTGTTGTACTGGGCTGTGCATCCATTGTTGGGTTTGAAACCCTAGCATGGTGCACATGCTAGGAAAATGTTTTACCCTGGAGGTGTAGCCCTTCAGGAAGTATACATTAACTTCCATTTGGTTTTCAGAGAGTAGAGCAAACCAGTCCTTTCAGGATACAGAAATGTTGTTTTTTCTATGGTACTAGAGATTGTACTGAGAACCTTACATGTTAAGCCACACCCTTCCCTCCCCCATATTTGAATTTTAACTTACTTTGAATGAATTACCTTGCTTTCACTTGAACTGTGATTTCCTTGGCCATAGGAAAGTTTGTCATCTCCTGCTGAGCCTTTTTCACTCATACGTGTTTCTGTATATGCAG
Seq C2 exon
GATGTCAGTTATTCATTCCTAGTCTGACCCCCTGGTTAAAACAAGAAGAGTCCGAGGTGGCGGAAAGTGCTGTTCCTCAAC
VastDB Features
Vast-tools module Information
Secondary ID
-5730601F06Rik:NM_001082485:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
No protein impact description available





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:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000066012





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000134217
  



Associated events






Conservation


Human
(hg38)
chr19:9417909-9418504 
ALTERNATIVE
HsaINT0186644
(ZNF266)
Human
(hg19)
chr19:9528585-9529180 
ALTERNATIVE
HsaINT0186644
(ZNF266)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr1:121433880-121434523 
LOW PSI
BtaINT0005419
([1])
Chicken
(galGal4)
chr10:22507-23063 
Chicken
(galGal3)
chrUn_random:53096033-53096567 
GgaINT0002231
([2])
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]










Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"