Special

MmuINT0041395 @ mm9

Intron Retention

Gene
NA
Description
NA
Coordinates
chr6:122020796-122021896:+
Coord C1 exon
chr6:122020796-122021024
Coord A exon
chr6:122021025-122021769
Coord C2 exon
chr6:122021770-122021896
Length
745 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAAC
5' ss Score
1.64
3' ss Seq
TTTTCCCTGTGGGGCCACAGATG
3' ss Score
7.38
Exon sequences
Seq C1 exon
CTCCACAGGAGTGGCTGAAGTGGAAATGACAGTCCCTGACACCATCACTGAATGGAAGGCCGGAGCCCTCTGCCTATCCAATGACACTGGCCTTGGCCTCTCTTCTGTGGTACCTCTCCAAGCCTTCCAGCCCTTCTTTGTGGAAGTCTCATTGCCCTACTCCGTGGTCCGTGGAGAAGCCTTCATGCTCAAAGCCACTGTGATGAACTACCTCCCTACAAGCATGCGG
Seq A exon
GTGAACACCTTTCTGAATTCAGCATGACCAGAGGGGACGATTAGTGTGTGTAGATTTTAACTAAGACTTAATTTAAAAGAATAAATAACGTGGGGAAGAGTTTGTACAGGACTGGTCAGCAAGTAGTGCCAAATGTTTAAACAATTCCCATATGCTAGCTATATATACACAGCAAAGAGTTGCTCAAGAGTATGAACATGACATAAAATTAGGTGGTTTTGCCAGTATGTAAACAGCACATACTGTAGTAGCAGAGAGAGGATATTGCATGTAGCCTCTGTATATAATCAAAAGACATGGTCCATATATATGTATGAGGTTGTTGCCAGGATAAAATGATACATTGTTTTACAATGAATTTTTCTTTCATTAGATGGAGGTGTATACTTAAACCTGTTACATAAAAATCTAGTACATTAATGTGCTTCTGCCATCAAAATAAAACAAATATTAGTAGATATATATAATTATCCCCTTAATGGTTTGTGTAGATAATACATAGATGATAGCTAAATAACACTCTAGAAATGCATGTGCAAACGACATCTTTGCAAGCCTTCTGTGTCAACTTACGTGACATTTTAGGCATGTTTTCCAAACACATCCCCTCTCTTCTCTTTCTAACACAAATCCCCATAAGACTTTGGCCTACCTACTACCATGCATAACATGCTGTCCTTCCATGGTGAAAATTTTTCTTTTCATTTATTTATTTTGCTGCTTCTTTTTCCCTGTGGGGCCACAG
Seq C2 exon
ATGAGTGTGCAGCTGGAAGCCTCTCCTGATTTCACAGCTGTCCCAGTGGGAGATGACCACGATTCTTACTGCCTCAGTGCCAATGGGAGGCACACCTCATCCTGGCTGGTAACTCCCAAGTCTTTAG
VastDB Features
Vast-tools module Information
Secondary ID
-Cpamd8:NM_008646:19
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:
ENSMUSP00000080469





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Conservation


Human
(hg38)
chr12:9164260-9165138 
ALTERNATIVE
HsaINT0135670
(PZP)
Human
(hg19)
chr12:9316856-9317734 
ALTERNATIVE
HsaINT0135670
(PZP)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr5:101324304-101325096 
LOW PSI
BtaINT0010517
(A2M)
Chicken
(galGal4)
chr1:75698803-75699076 
Chicken
(galGal3)
chr1:79367304-79367576 
Zebrafish
(danRer10)
chr3:3655315-3655394 
LOW PSI
DreINT0000009
(A2ML1 (1 of 13))
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
ACAGGAGTGGCTGAAGTGGAA

				
R: 
TTGGGAGTTACCAGCCAGGAT

				
Band lengths: 
344-1089

			

		

	





	
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"