Special

MmuINT0142302 @ mm9

Intron Retention

Gene
ENSMUSG00000030683 | Sez6l2
Description
seizure related 6 homolog like 2 [Source:MGI Symbol;Acc:MGI:2385295]
Coordinates
chr7:134111221-134111558:+
Coord C1 exon
chr7:134111221-134111259
Coord A exon
chr7:134111260-134111440
Coord C2 exon
chr7:134111441-134111558
Length
181 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
CTATCTTCCTCCCTCCCCAGTGA
3' ss Score
10.58
Exon sequences
Seq C1 exon
TGGCCTATGAGGAGCTCCTGGACAACCGAAAACTGGAAG
Seq A exon
GTCAGTGAGGGTGCAGGTGGAGACCAGGCCTGGCCAGGTTGGGAGGGCAAGATCAAGGCTGGGGGTAGGAGGCCAGGCCCCGGAGGGGTGAAGCCAAGGGTTCAGGCCCCAGGGCAGGAGGCTGGGAGAGCCCAGGAATGGGGATGGCCTTCATTCATTTGCTATCTTCCTCCCTCCCCAG
Seq C2 exon
TGACCCAGACTACAGACCCATCACGGCAGCTGGAGGGTGGTAATCTCGCTTTGGCCATCCTGTTGCCCCTGGGCTTGGTCATTGTCCTTGGCATTGGCGTTTACATATACTACACTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030683-Sez6l2:NM_144926:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.071 A=NA C2=0.120
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000032921





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000101939, ENSMUSP00000101940
  



Associated events






Conservation


Human
(hg38)
chr17:28956468-28956718 
ALTERNATIVE
HsaINT0148428
(SEZ6)
Human
(hg19)
chr16:29883848-29884025 
HsaINT0148458
(SEZ6L2)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr25:26638061-26638745 
LOW PSI
BtaINT0131744
(SEZ6L2)
Chicken
(galGal4)
chr15:7132890-7133178 
LOW PSI
GgaINT0006828
(SEZ6L)
Chicken
(galGal3)
chr15:7353815-7354103 
LOW PSI
GgaINT0006828
(SEZ6L)
Zebrafish
(danRer10)
chr3:15092052-15092151 
LOW PSI
DreINT0133612
(sez6l2)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TGGCCTATGAGGAGCTCC

				
R: 
GTGTAGTATATGTAAACGCCAATGCC

				
Band lengths: 
154-335

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Pre-implantation embryo development
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






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