Special

MmuINT0172935 @ mm9

Intron Retention

Gene
ENSMUSG00000038775 | Vill
Description
villin-like [Source:MGI Symbol;Acc:MGI:1201781]
Coordinates
chr9:118977430-118979186:+
Coord C1 exon
chr9:118977430-118977574
Coord A exon
chr9:118977575-118979000
Coord C2 exon
chr9:118979001-118979186
Length
1426 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
AGGCCTCCTCTGTGGCCCAGATC
3' ss Score
4.04
Exon sequences
Seq C1 exon
GCTTCCCGAGGAGGTGTGGAGCATCCAGCCCCGACTGTTCGAGTGCTCCAGTCACGCAGGCTGCCTGGTCCTCACGGAAGTGCTGTTCTTTGGCCAAGAGGACTTGGACAAGTATGACATCATGTTACTAGACACCTGTCAGGAG
Seq A exon
GTAAAGTGGCCACTCCTGTTTGGCTGGGCTGGGAACTCAGGGTGTGCATCAGTGTGGTTGGGCGTGAAGGAGAGTCTAGCCTGTGACTGATTGTTGCCGTGGACTCAGAGTCCGGGTGTAATAGAGTCAGGTTGTATGTGGTTGTGACCGTGCGTGTTGTGTGTAATGCTGTGTGCCCCATGATGCTGTGTGTGACTGAGGCTCTGCCTAGCTACACGGCACCGCAGGATGTGGAGGGTCTGACTGGGTAGCACAGGGGACTCTTTGAACCTGCACATTTGGGTAGCTACGGCTGTGGGTAACCAGACCATGCAAGCAGTTGTGCAGTCCAGTATAGTCCAGTACGAACAAGAACTGGCCACACCAGTTGTAACTGTGTGTGCACGTGTCTGTGTGAGAGGAAAAGGGGGAACATGGGGTTGGTTGTTGGTGTGACAGAGCAACTGCATTTGTGAGTCTGTAGAATTCTGTGAGCCCATGAGATGGTATACACGACCAGCCAGAAATTGTTACGTGACAGGTAACAAGATGTGACGTGTCTATGTGCACACATTAGATGACAGTAACTGGCTGTGGTCAGCTATCTGGCTCTATGGCAACGGGCAAAGTGTCTCTGCAGCTGCGATACCGTGCGCATGTCATTGTGTGTGGTAGCGTGTGCGTGTGTATGTGAGTGTGTGCGTGGTCGTGTGTGACTGTGTATGCTACTGTCTCTGTTGGGATAAGGTTGAGCCCTGAGGACATCTCAGAGGAAACCCAAGCCCAGACTCCACCCCCTCTCCCCCACTGCACAGCCCACCACATTGCCCAGTCAGCCCCTCTCTGACCAATCATCTCCCCTGACTCCACCCCCTTAGCCCAGAATGGCCTCAAACTAACTATGTAACCCTGAACTTCTGATCTGAGTCCATCTCCCAAGTGCTGGGAATACAGACCTAGCCCACCCCCTCCTGTTTACGTGGTACTTGGGGTCTAGGGCTTTGCTAAGCAAGCACTTGAACTGAATAGTAGCCCCCACCCCTTTTTGAGGCAGAGAATCACACTGTGCAGGCTAACCTCAAACTCTCTCTGTAGCCAAGGATTGCCTTGAACTGACTCTCCTGCCTCCACTTTGCCCGTGCCATCTGTCATTAAAGACATGTGCCACAATACCTGGCTTAGGGACTGAAGCCTGTGTTCTTTCTACCGTTGAGTCTTTAGTACCAAGCCCACCCTAGTGATTCATACCTATTTATAGATTAGATACATGCAGGCATGCATGCATGCCTGTGACCTCAAGTGTTCATGGGTGTACGGACACCGTAACGTGTTGGGTTCTTGGCCATGCATATGCATGCGGGCTTCTGAAGCCATCTGAGTTGGGAGGAGGTGGCTGTCACAAGCAGTCCCTCCACCTGTCCAAGCCCAGGCCTCCTCTGTGGCCCAG
Seq C2 exon
ATCTTCCTGTGGCTTGGGGAAGCTGCAGGTGAATGGAAGAAAGAAGCAGTGGCCTGGGGCCTTGAGTACCTGAGGACTCACCCAGCAGAGAGGAGCCTGGCCACACCCATCTTTGTGGTCAAGCAAGGCCATGAGCCAGCCACCTTTACCGGGTGGTTTGTCACCTGGGACCCTTACAAGTGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038775-Vill:NM_001164567:16
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact





	

	
No protein impact description available





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.154 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0062617=Gelsolin=PU(32.9=51.0)

							
A:
NA

							
C2:
PF0062617=Gelsolin=PD(64.5=79.0)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000061731





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000116262, ENSMUSP00000116546, ENSMUSP00000120102
  



Associated events






Conservation


Human
(hg38)
chr3:38004400-38005791 
ALTERNATIVE
HsaINT0180204
(VILL)
Human
(hg19)
chr3:38045891-38047282 
ALTERNATIVE
HsaINT0180204
(VILL)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr22:11491202-11495070 
ALTERNATIVE
BtaINT0159763
(VILL)
Chicken
(galGal4)
chr2:4587902-4588654 
LOW PSI
GgaINT0102139
(VILL)
Chicken
(galGal3)
chr2:4516796-4517548 
LOW PSI
GgaINT0102139
([1])
Zebrafish
(danRer10)
chr24:20279354-20280690 
LOW PSI
DreINT0022377
(VILL)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CTTCCCGAGGAGGTGTGGAG

				
R: 
TCCACTTGTAAGGGTCCCAGG

				
Band lengths: 
328-1754

			

		

	





	
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"