Special

MmuINT0041386 @ mm9

Intron Retention

Gene
NA
Description
NA
Coordinates
chr6:121986258-121987210:+
Coord C1 exon
chr6:121986258-121986367
Coord A exon
chr6:121986368-121987048
Coord C2 exon
chr6:121987049-121987210
Length
681 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGG
5' ss Score
6.6
3' ss Seq
TTCTTCCTTGTTCAACTTAGGTC
3' ss Score
8.81
Exon sequences
Seq C1 exon
GACTGGAGTTCAATGGATATGGAACAACTAAAATTGAAAGAATCACAAACAAGCTCATATTTCTGAAGGCAGATTCACACTTCAGACATGGGATTCCATTCTTTGTGAAA
Seq A exon
GTAAGGTGCTTTTTGGTTCATAGCCTGTTTAGTTGTAGAGTGGTACTTCAAAACCAAAGCCATTCTGCTAGATATTAAGCATGTCTGACATCATTGATTGCAACACAAGAAGTGCAGCTTAGGGGTGGAGTGTATGTTTCTTATGCCCAAGTATATGAGTTCAATTTTCAGAACTAAACTGAAGACTTAGGTTATCTGGAGGCTCCAAATCTAAAACATAGGCTGCAAAATTTTTATTTATAAATACGTTTTCTGAAAACCTTACACCCCAAAGTGTCACTGTGTTTCAATGGTGAAGCAGCATATGCTACATACTCATAACAGATCCACGCTCTCCATTAGCCTCTGTGCCCTCACAAGTTGTTCTTGTGATATTGACAGAGCATCTGTTTCCCGTACTTTACACAAAGGAGTCAATGATGGTTTCTTATGAATAATAAGAAAGTAGAAAGCATCTATCAAGCATTTATTACGGTGTTAAGAATATGATACCTTCAGCCTTTATACTTTCACAGCATAACTAGTGCTGCTGGTATGGATTTTCTGGAACCAGTTTTTGCATGTGCTGAATTTATTGATGCATCTTTGAAATCTTTCTAAAACACTGAAACAGTGTTTTCTCTTACATTCTTTGTCATATTTCCATGCTTAGACTATACTTTTCTTCCTTGTTCAACTTAG
Seq C2 exon
GTCCGCCTAGTGGATATCAAGGGAGACCCTATCCCAAATGAGAGAGTCTTCATCAAAGCACAAGTACTTGGCTATACCAGTGCTACTACCACTGATCAGCATGGCCTGGCAAAGTTCTCCATAGACACTGCTGGCTTCTCGGGCTCTTCCCTCCATATCAAA
VastDB Features
Vast-tools module Information
Secondary ID
-Cpamd8:NM_008646:10
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)
chr12:9104401-9106235 
ALTERNATIVE
HsaINT0000025
(A2M)
Human
(hg19)
chr12:9256997-9258831 
ALTERNATIVE
HsaINT0000025
(A2M)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr5:101229767-101230456 
LOW PSI
BtaINT0007438
([1])
Chicken
(galGal4)
chr1:75733958-75735218 
ALTERNATIVE
GgaINT0103743
([2])
Chicken
(galGal3)
chr1:79375153-79376413 
LOW PSI
GgaINT0103743
([3])
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
ACTGGAGTTCAATGGATATGGAACA

				
R: 
TTTGATATGGAGGGAAGAGCC

				
Band lengths: 
271-952

			

		

	





	
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"