Special

MmuINT0097645 @ mm9

Intron Retention

Gene
ENSMUSG00000036466 | Megf11
Description
multiple EGF-like-domains 11 [Source:MGI Symbol;Acc:MGI:1920951]
Coordinates
chr9:64553534-64557012:+
Coord C1 exon
chr9:64553534-64553740
Coord A exon
chr9:64553741-64554333
Coord C2 exon
chr9:64554334-64557012
Length
593 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGGT
5' ss Score
7.03
3' ss Seq
TTTTTCACTATATTCCTTAGAGC
3' ss Score
7.76
Exon sequences
Seq C1 exon
ATTACATGAAAGAATCTGTGTGCAGTTCTAGCACTTGCTCCTTGAACAGCAGTGAAAACCCTTACGCCACAATTAAGGACCCACCCATCCTCACCTGCAAGCTTCCAGAAAGCAGTTATGTAGAAATGAAGTCACCTGTGCACTTGGGGTCTCCGTACACAGATGTGCCATCCTTGTCGACATCTAATAAAAATATATATGAAGTTG
Seq A exon
GTAGGTGTCTCACATAACTTAGCAAAACCAGGGCAACAGTGCAGCATCTCAAGTGAAAACAAGCCCTCCTCCACACACTCTATCTCCATACCACATCCTTCTGTTTGGTTGCATTTGAAGGAACCTGAGGAGAAACTTTGTCTCAGGGTTGCCCTTCCCTCTAATGCAGGAAACCAGAATCTTGTGCCACCTTGCTTACAAATCACAACTGATAAAAGTAGAAACTGTGAGGGTGGAGAGCCAGTATACAACACTTCGACTACTGTTAATACAAATCCAAAGCGGAAAACGAAAACAATCAGAATGGCCGTTTACAAGTTTCTAAATCACTTCTTAAACCTCCCCCAGTAAGACCCACACCTCTAGGATGTCTTGAATCTCTTGTTGTTGAGCAAACTAGGATTCTGGCAGTACACTGTCTTAGGTTTTTCCCTCTCTTAAGCAAGCCTCCATCCTAATCCTCCTGGATTTGTCAGATGTATACATATACCCACAGTTTTTCTCCCCAACAAGTTAAATAGAACTTTCTTCCCTCCCACCAAGGCAACAATGCTAATCTATTCTCTGAACTCATTTTTCACTATATTCCTTAG
Seq C2 exon
AGCCCACAGTCAGTGTGGTCCAAGAAGGCCGAGGTCATAACTCCAGCTATATCCAGAATCCATACGACCTACCTAAGAACAGCCATATTCCTGGTCACTATGACCTCCTCCCAGTAAGACAGAGCCCTGCCCATGGGCCCTTCCAGGAAAAGCAGTAAGAGGGATAAGCGTCTCTCTTAGTGTGCTCTGCTGACTATTTTCTGACTCTGAAAGAAGACAATCCATGACTTGAAATATCAGTACAGAATGCCTTGAGCTGTGTGTTATTAGTTCCTTCACCTGGATTGAAAGAAACACTTCCAAACGGGACTGGGGTAACTGTTCAAGAAAGTCTGTTCACAAAGGCAAATCCTATCAACCTTTCAGCTCTAAATGTCCTGGATATGATTTTTCAGAACATTAAAGATACCACTTTTCATCAGCATCAGCTAAAAGCTATGTATTTAATATTCTGAAACATCGCTTAAGAAGCATGTAGCTTAGGTTCCTCAAGCCTTCCAAGAAGGAAAAGGAAACTGGGAGGGGAGGGGGCACTTAAAGTGCCTGAAATGTGTATGTGCTGTTGATTGTTGTTATCCTCAACATCTGTTTCAGTATCTAAGGGAATTGGTATGTGGGCATGAACTGTTCTAATATTAATCTTGGTCTCTGTTCATTTGGTATGCCCCAGCAAATTATAACAGCCACAATCAGAGTTTAAAATATAACCTAATTCTTTAATCAAGACAGGTTCACTTTCTTCTGCCCTATCAGTAATAGTAGGCAAAACAGAAAGGGGGAAAAGAGCAGCAGTTTCACTCACTCTAGAATGATTTCTATGCCAGCCTTACCAAATTTTGCCAAGTCAAAGTTCAAGAATAACGAATGCCAATCCTGGCCTGGCTGCATTGCATTGGTTCACCCAATACTTGAGTCATTCTGTGTGCACCAGAGAACTAAGATGCTGTTTTAAGAAAATGGTCACAGGGCTGGGAATGTAGCTTAGTGGTAGATGTTCTTGCCTACTGAGCAAGGACCTGGGATAGATCAGCAGCATCATATAAAAGGCATAGGCTTATAATGAAGTTTCCCCAACAACATAATTAGATCACTCAAGTTACTTAGTCGGAGTTCCTTGACTTGTTTATGGGCAGTTCTTCATAGATGGTGCTTGATGTAGTATGGAACCTTAAGGTGTAGAAAATATTACACAAATGTGGGCATGGCACACTTATGTTGCTTAGCATACATTATGTTTTTGATGCAACTAAATGAAATAAATGTAAAACAAAACAAAAACAAAAAAACATAAAAGCCCACCGCCTGAAGTGGGCAAATATGTATTCCATTAGTTGGTGCTTTTAATCTCCTGTCCAGAGAAGTCCATAACTTCCACTGCACAGGTAACAATAGGTAAACGGAGGCTTGGACAACTCTGAATGGTTAATCCCCAAATTCTTCACAAGAATTAAGAACAGAAGGGACAAGTTGGAAGTTAATGGTCACCTTTGTGCCATCCCATGTTCTTAAGAGGATTAAGAGTCTAGAGTGAGTAAAAATTACCTAGAAGGGGTTTACAGAAGAGGGACTAGAAGACTGTAAAGCTAGATACTGCTACAGGAAGTAGGGATGATAACCTTAGTTTGAGTAGTAATCAGCAAAAGAGAGAAAATAAATATGTAAGCAAATCTCTGCTCGTTTCACTCCAGGCATAAGCCAGTATGACATTAGAGGAACACATACATGAATGCTGCATGTGTGCATGGAAGCGAGCCATCAGCAATAGTGAACGCTCCCAAAAGCCTTATAAAATAGAAACAGTAGGAAATATTGGTAGACCTAAGTTAATATTTCTCATACATGTATAAAGAAACGTAGTGAAGAGACTCACCTCAGTGTTTCAGGGCCACAAGTGCTCTGTTATCTTTGTGAAGCAAGGATGAAGAAGCATGGCGAAGTCCAACCAGCAAGCAGAAATGGCGTCTCAATCCCAGGCTTTATCTTCTTCCCCTACCCTGCATGTACAATAACTGCTACCTGGCAAACTGCAATCATGCAAATTCCAAACCTCACTTCTCTCTTGCCAACTACACTCTGCACAAAGTACCCAGCAAGAGGTGGGATGGCTAGAGCAGCAAGTCAAGAGAAGTTGGCACCACTCTTGTTGAGTCACTTGCCCTCTTCGGGCTCCTTTATTACCCACACATGAAAGAAGAGAGACACAGAGTGGGAGCAGAGCTCTAACAACTCTCCAAGTGTAGCACTCTACAACATTTCAAGTAACATAGTTCAGTCAGGCTATACAGAGAAGGGAAAGGGCAAAGATGTGATTAAGTATGGTGACAGCAGCAGCCTTCACATAGCTAAGAGTTAGCACTAGGACATTTCGATCATGCAGAGCAACTGTTAGGAACTTCTGTCTAACAATCACAAACAGGTTTGCGGTCAGCCTCAACATGTGCGCTGTGCATTCTATAGTCAATTTGGAAAGATCTGCTCAATTATTTTTCAAAACAAAAATTTCAATCCAGTAAATTAATATGTATACAAGTCAGACAAAGAAAACACAGATACTGTACAATAGTGTGAGAGACTATGAAATGGCAATACTTTTTTAAACCACAGATTTGTAATATATTTGTTCACTGTGCAGAGGATGTACCTTATACAAAATAAAATGGATTCTCAAACTAACATTAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036466-Megf11:NM_001134399:24
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.247 A=NA C2=0.677
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000128672





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000114035
  



Associated events






Conservation


Human
(hg38)
chr15:65898095-65898727 
ALTERNATIVE
HsaINT1022756
(MEGF11)
Human
(hg19)
chr15:66190433-66191065 
HsaINT0101805
(MEGF11)
Rat
(rn6)
chr8:70183970-70184584 
Cow
(bosTau6)
chr10:12720685-12721341 
Chicken
(galGal4)
chr10:17667010-17667100 
LOW PSI
GgaINT0027392
(MEGF11)
Chicken
(galGal3)
chr10:20328264-20328354 
LOW PSI
GgaINT0027392
([1])
Zebrafish
(danRer10)
chr18:19154547-19158655 
LOW PSI
DreINT0095007
(megf11)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TGAAGTCACCTGTGCACTTGG

				
R: 
ACACAGCTCAAGGCATTCTGT

				
Band lengths: 
343-936

			

		

	





	
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






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