Special

MmuINT0111278 @ mm9

Intron Retention

Gene
ENSMUSG00000050836 | Ntng1
Description
netrin G1 [Source:MGI Symbol;Acc:MGI:1934028]
Coordinates
chr3:109630545-109635553:-
Coord C1 exon
chr3:109635386-109635553
Coord A exon
chr3:109630680-109635385
Coord C2 exon
chr3:109630545-109630679
Length
4706 bp
Sequences
Splice sites
5' ss Seq
TAGGTCAGT
5' ss Score
6.39
3' ss Seq
GTGTTGTCTTGTTTCTACAGAGT
3' ss Score
10.07
Exon sequences
Seq C1 exon
ACTGTGAATGCTTCGGCCACTCCAATCGGTGCAGTTATATCGATCTGCTAAACACAGTCATTTGCGTGAGCTGTAAACACAACACTAGAGGGCAGCACTGTGAGTTATGCAGGCTGGGCTACTTCAGAAATGCTTCTGCACAGCTGGACGATGAGAATGTGTGCATAG
Seq A exon
GTCAGTTCCATTATGATTTCAGCTTTTGTTCTGTGCCTTTGGAGCTATGGGGAGCTGGTTAGGGTGAAGACGCTGGTGAACTGCACGACAGCTGAGCCAGAATGAATATCCTCAATGGAGTAAATATCCTTGGTAGACTGAAAATTCGCTTGCATTTGGATAAAGCCATATTTGGTCTGGGGTTGGGGGATGGAACTTGAATCCTTATATTGTTATGTTAAAGATGGTGTCATGAGAAATCATATCTAGGAAATGAAGAATATTCGAATTTTCTTTCTTTAGTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCTTTTTGTCTCTTTAATTTTTGCATGAAATCTTAAAATCTGATAAATTTTTATCTGATTTTATTCACCTCAAATTCTACATTCAACCTTTAAGATGATAATTAACTATTTTAGGTAAAATACTTTGTGATACAGAGTCAGGTATAATTGATGATGATCTACAAATATTGGTATATTAAAATGTTGCTATTAAGAACTGAAAACTACTAGTAGATTCTAATGCAAAAGTTTGCATACCTTTTCTATATGCAGCAATGAAATTCCACTTATTGGATTTTCCTATTGTTCCCAGAGGAAGAGTAATTTCTCAAGACTTCTCCAGGTTATAAATTCTGTTAGATCACAAGGTATATGAGCCATAGAAAATAGAGTCTTGGGAAGAGAAATCCCAGGAGCCTCGCCCCTCCCCCATGACGGATTATTCTCAGCTAAAAGGATCAGGTGTTCCTTCCCTTTTGGAAGTTTCTTCTACCTTCTCTATGAAGAGCCTGACTTTAAGGAAGGAAGTCTGGAGCCAGGCATGCTGGGGCACACTTGTAATCAGTACAAGTGGTAGATGAACGAAACGAATCAGGAATTTGAGGCAGGCTTTGGCTACATGGTGGATGGAGGCCAGCCTGCATTGCATGAGCCCCTATCTCAAAACAGTGGCATGAGAGAGCCTGATAGAGAAGCAGTAAATGGAATTTCATTGCATAATTTACTCTTTAAAGTGTATATATTTGAAGTGTGATGCCTGTTACCACACCAGTAATTATACAAGCAAAATTTTCCAGAGACAAATTTCAATAGCATTGATAAGTTGGAAAATTAAAGCATAGTAGACATAAAATAAAAAGTGATCTTTTTGTCAAAAGTAAGAGGCAGTTTTTCAATTCAACTGTGAGTCTTGGATCCCCACTTTCTGCCTTCAGTGTGACAATCATGGACATTCTTGCCTACTACCATTGAATAGCACTATGGTTATTTTGAATTTATTTGGACCAAGTATGCATATGCCGACAATATTTTCTATTTCTTTCAAAATGCTTCTTTTTTATTATTTGTGAATTAGTGGAGAAAGTACTGGAGTTAGATGCTGGAGAGCTGGGTTCAACACCCAGTTTGCTATCCCCTAGCTAGGTAAGTCATTTAAACCTCCTGGCTTTTTTGTAAACAAATGGACAGGAAGCACTGGTAAAGTATGCACTGACATGCAATTAAAAAAAAAAGATAAAACAACTAATTCTCATTAACAAAACAGTAGGGTAAGTATTATAATAATGATTTTTTTCCTCTTTCATATTGGGGGTGAAATAAAGACAGATTGACCCAACTTGTATACTCTTAGCGAAAAACATCCTGACTTCATGAACTGAACACTCTCTCCTAACCACTCTAACACAGCCAGCAAAGCTATAGATGCCCAGACTTTACCTCAAGTATGCTTTTGCAGGACAGTAGCCATCCTACTGCCATCTTATGAAAAGGTGTCCAATTACATTCCTAACACTTAGATTATGAAGACTTGAGGATATTAATAGAAACAAAAGGATGCACTGCTGTCTTAATTTTGAGTGTAGAATATATTCTGCTGTATGCCACTTGTGAAAAAATATAAATACCCTCCTATAAATAAAGACAAAACAAAAGGTTAAGTGAATACAACCACTAGAACAAACTCTAATTCACTACATATATACATAGGCATATATGCATATATATGAAATTAAAGTATCTCACATTTAAATACTTTAAATAAAGCAAAGCAAAAAGACCTTACAGGGAAAGATTGAATATTTAATTTGTAAGTCCCTACCACAGCAATTGAGAACTAATTGCTATTTAGTCCAGAAAGAACTAAAGGAATGGATATTTGCTTAATTCATTCTCACAGCATTCTCAAGTACTTTGAACTCTACATCATCTCTAAATTAAAAAAACAAACTTTTTCAATAGATGCCTTGCAATTTTTTTTTTTTTTTTAGTAATTGTCAATTAAATTCACCATCCAACTGTGAGGGAATAGCTCACATCTCTAATCTAGGTAGATGTTTTGAGGTCACTTTATATTATAGCAAATTTATAATGCAGCTGGATAGTTCATGTTGCCACAGTGATTGCTGCTTTGTGGTGACTGGTGAATTTTTTCAATTTTCATACATATTCCAAGAAGACATACAGTCATGTCTTCTGAGGTACATGACATTTCCCCATGACGATGCAACAATTACATGAAAATGGCATCCTTGTTTGCCTTTGTCTCCTACAAACCTGAGCATTAAGCAGGAAGCTAGAGGATGCATGGTTTCTGACCTTGAGTAATCACTGTTAATAATTCCCCTAACGAGCTTTGCATCAGAGAGAAACACAGGGCTCAGCAGTTGCTACTAAACATATCTCAAAGTTATGATGCATTATTTTTAATTCTCCTTGAAACCCACGATCAGGTAATGAGAGGTTCCTTGCACAGAACCAAGGAAACTCAAGACGATTTTAATGCCCCTAAATAAATTGTAGTATAAGGTTTTAATTGAGCTGTGCAAAGTATTTTATGCTGGCTTGCAATCTGACAGCCCTGCATTTTCTTCATAATTTCATGTAATAAAATATTATCCTTACGGTCTCTCCTACTATTCCATGTATCATTGAATAGAACTTCCTAAGTGATAAATCTAAAAAAAACTGTACTATTCCTATATAAGGTGAAGAAGGGAAAACATTATGTCTCTTACCCGTTTATTTTTATAACTAAGATTACATTGTCCAGCTTTCTTACAACAAAGACTGGGACTTACTATGGATTAGATGTTGGACAGTATATTTTTTGATTTTTAAAAACCTATCTCTTTGATCACTGTGGACTACTTGGAACAGCATGTAGGTTCATACTGCCCAGGTGTAACAAAAACTGGCTTACAAAACACCAACAACTCTTTATCAACATGCCCACTTTATAAAGTGACACCCATTCCAGGGCGACCTAGGCACAACTCAGTGAATACAAATGTATAAACAAAAATTAAAAACCACAACAAAATAATGACTTTTAATTATTCCTACCCACACATAGGCACACATTAGAATAAAAAATGCTGCCATGGAAAAGTAGAAATGTTTTGGAATTTTATTTTAATTTTACACACACACACACACACACACACACACACTTACACACCATCATTAGTTGTATAACTGTTTGTTTCATGAGAATTCTAAGCTCTAAATACTGAGTTAACACAACATAAATCATAATTCAAAGGTCTTTCACATCGTTGGAAGAAATTTTCATTTGTCTCAATGTCAAAATTTGAGTAAAACCTCCAGGTCTATTCACAATGATAATTCCAAATCCTCATCGCTAATGACACAACTCACTTAAAATTAAGCTGAACTCCCCAGAGCTTTGGTCCATTTGCTACATGATTTTATTCCAACTTTTATTGGGAGATCCTCAGAATGGTTCCATCTTAAAATAAAAGAAAATTGAGAAACAGAAAGTCCCAATAACCTGCCCAAGATCACACAGCATGGTAGTGGTGAAAAGAACACCAGCTCAGACATCCCTTGCTCCAAACCACCTATGTGTCTCCACCTAGGGGACAAAACAGGTTTCCCACTCCCCACTTAAGCTATGAACACTATAGAGCTTCAGATATTCAAATGCCCTGTCTAGGAGTGCATGGGGATCAAAGAAACATTCCCTTGGCTTTTTATTATGCCAAGCCATTACCTTGCCCGGACAAGAAAGTTGTAGAGACAAACATCCATCTCAAAGTTTATTTTCCTTCAGATTGGGAGTATGAAATTTATTTTTCTTTCATGGTTGTTCATGTAAGCTACATAAGAGCTGTGTGATCATGGCTAGCAAACACAATGGCTAAGGGCTCATCTCAAAACCCGATACATATAAATAAGTTAAGACACCATCCAAAATCATAAAGCAAAAGTACCTTTAAATGAGTAAAGTGCATTCGTATTGCACTTTGAGACGCTCAGCCATTCCCAGATATTGAGGGTAGCAGATAAACCCATTTGAATAATTTAAAACAGATTTTACACTGATGGAATATTGATTTATCCTTGATATACATACTTCTCATGGCATTCATTAAACCATCTAAAAAATGACCTAACAAATGGAATCTCCATTATGATCTGTTACTGGTGAAAGCATGATGTCTTATTTCCTTGGAAGGGTTCAGCTCTTTTCCTCCCCTATCATAAAGATGATGCCATGGAAGGCTGAGCAAGTAAATAAATGGCCCTGAAATAGCCACATTTGCCAAAGCATTTCATTAATGGACATCTTCCTTTAAGTAAGTGAATCCTTCTAAGTAAGTGACGCTCCTGTGTTGATAACCTCTAAGCCACTCGAAGTGTCTCCAGCCTGTGTGTTGTCTTGTTTCTACAG
Seq C2 exon
AGTGTTATTGTAACCCTTTGGGCTCAATCCATGATCGTTGTAATGGCTCAGGATTTTGTGAGTGTAAGACTGGAACAACAGGGCCTAAATGTGATGAGTGTCTGCCAGGAAATTCCTGGTACTACGGCTGTCAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000050836-Ntng1:NM_030699:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





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:
ENSMUSP00000072397





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr1:107973540-107979286 
ALTERNATIVE
HsaINT0116410
(NTNG1)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr3:36023066-36028786 
Chicken
(galGal4)
chr8:933140-938999 
Chicken
(galGal3)
chr8:935850-941709 
LOW PSI
GgaINT0034799
(NTNG1)
Zebrafish
(danRer10)
chr24:29501299-29528266 
DreINT0106989
(ntng1a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
No suggested primer sequences

				
R: 
No suggested primer sequences

				
Band lengths: 

			

		

	





	
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






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