Special

MmuINT0111287 @ mm9

Intron Retention

Gene
ENSMUSG00000035513 | Ntng2
Description
netrin G2 [Source:MGI Symbol;Acc:MGI:2159341]
Coordinates
chr2:29060418-29063110:-
Coord C1 exon
chr2:29062938-29063110
Coord A exon
chr2:29060445-29062937
Coord C2 exon
chr2:29060418-29060444
Length
2493 bp
Sequences
Splice sites
5' ss Seq
CCTGTACGT
5' ss Score
5.32
3' ss Seq
AACCCTCTGTGCCCCTACAGGTG
3' ss Score
11.74
Exon sequences
Seq C1 exon
GTGTAAGTGCAACCTGCATGCCAACCTGTGCACAGTGCGAGAGGGCAGCCTGCAGTGTGAGTGTGAACACAACACCACGGGCCCCGACTGTGGCAGGTGCAAGAAGAACTTCCGCACACGCGCCTGGCGAGCTGGCTCCTACCTGCCGCTGCCCCACGGCTCTCCCAATGCCT
Seq A exon
GTACGTATGTAGCCTGCCCAGCTGCAGTCCTTATTCTGTGCCCCAGCACGGTGGCTCACACGTGCACGTGCGTGCACACACCCACACACCCACACAGAGGAGGGGAGGGGGCAGCTGACATGGATACACACATGTTATCACCCAACCCAGCTTCCCTCCTGTGTTTTCTAGGCTGTATTCTCTCAGCCCTAGTTGCAGGCAGGCCAACCCTTCTCAGCATCTTGTCTTCCATCCTTCTTCATTCTGAGCAGGGCAGGAACCCCATGGAGATGCAGAACAGGGGTACGGTGAATGCACCCTAACACCGGGTCTTATGAGGTGTATACCACAGCTGCCAGCACTCAGTGGAACTTTCACACTTAGTAGCTATGTCCTTTGAGATGCTTGGTCTGAGCCCCTGCTCTCAGACCAATCTTTTTTTGTTTGGTTGGTTTTTTTGTTTTTTTTGTTTTTTTAGTTTTCAAGACAGGGTTTCTCTGTGTAGCCCTGGCTGGCCTCGAACTCAGAAATCTGCCTGCCTCTACCTCCCAAGTGCTGGGATTAAAGCCGTGTGCCACCACACCCAGCCTCTCAGCCCAATCTTTCCCCCCCTTGTTCACCATCAGGGGAAGCCAAGTGAGAGATTTGTCCACACGTCTGCATCATGAGCACCCTTCGAGGGACCCCCCTCCCCAGAATATGCTTCATGAAATCACAGCTCCCACAAGTCTCTAGGCTGTGAGCAGCAGAGAGCCTAGGTTGGCACATGAAACCAAATGACCTGTCCCAGTCTGAGGCTGCACCAGATGTCACATGTCGCTTCCCTGAGTCCTTACAATACCACAGGAGTGCTGTAAATAACCCACCCTCCAGATGAGCACCCAGAGGCCCAGACAGCCCAGTCCCCTCCTGGTTCCATGGCCAGTCCCAGACAGCACAGGACCCAGTGACAAAGCCAGGGCCTACATATCCTAAACCACCTGTCCCATCCTGCCCCCTTCCTCACCCCTGAAAGATTCATGGGGCTTTAGACTGATCAAAGCTAAAAGCTGCAGCGAGGCAGCCGGTGACAGGCGTGGTGTGCGTGGGTTACAGCAGGCAGTGTGACAAGCCTTTGAAGAGGTGACTTGCCAGCCACCCCGAGGCACTCAAGGGTCTTCAAAGACACAGAATGGGCTTGGCGGCTGTTGGCCTGCCCCCCGTCAGGCTCCCTCATCCCGGGCAGCTCTCCACATCTCTTTGTATCCTGAGCCTTCCTTTAGTCCTTGTTGCTGTCTCTCACTAGTGGCTTGTCGCCCTTCCATCTGTCCTAAGGCCAGACCCAACCCCCCTGCACTTTTGCTCTGGCTCCTTCCTCAGCCTCCTAACTATCACCTCCACCACCAAGGACCAAGACTCGGACCTGCACAGCACCTAGGGCCACTGTCCCCATGCTCTGCTTAAGCAGTGGACAAACAGACCCCCGTGGCTTTTGTGTGTCTTGGCTCCTCCCTGCCCTGAGAGCCTGCCCCCCACCCCCACTTCCATCTACTTACCTCCTCTCAGGGACCTTCTCTTCATAATCACTGGGGCACCCCCTCCTGGGTGCCCACTACCTCAAAGCCTTGGAACGAAACCCTAAGTTGTCAATCCCCACCACCACCACCAAGTACAAGGCCCCTGTGAGATCACCCTACCCCATTCCTCCATGTCTCCCTATCCCCCAAGCCAAAATCCTCTATGCCCTGTCTCTTGGGACTGGACCGTCCTCTCCCTCAGGGGCAGACTCTGAGGGAGTCTTGACTCTACACCCCACTCCCAGCATCTATGAGTCCTCGCTCTCAGCTCCTACACTCCCAGGGGCTTGTCCATAGCACACACATATGGGACCTGCCGAAGTGTGTAAGACCAGAGTAGATGCCAGGAAAGGCATGTCGCCCACCCAGTCCACTGTCCCCTCCTAGGGTAAAGCCTTTCTCAGAACCACCTAAAGTGAAGCCATGACTGACTCCTTCCTTCCATGACTGTGACAGTTCTCCTCTGGGATGGTGACATCCTCTCCCACAGAGGCACAGAGAGACTTGAATTCAGCTTTTCCATGCCCCCCACCCCCACCCCAGAACATGCTTCATGAAATCACAGCTCCCACAAGTCCCCCAGCAGGCCAAGGCCACGCCCCTGATTCCATGCTGCTAACTCTGTGCATGATGGCATTGTGCTGCCCTAGGGAGCCTAGGGTGAGGTTAAACAGGAGGGAGGACTTGTCACAGTGTCCTGGGGAAGAAACAGTTTACAGTGTCCCATCTGCAAAATGGACTAAAAGCAGCCTTCAGGCAGTCAGTAGCGAGAGTCCACATAGGTATGATCCCACTGAGGATGCCCCTGTGACCAGACAGTCTCAGGCCCTCTAAGTCTCCTTCCCTTTAGTGGGGCTGGAAGACACTTCTGTGGCTCCCCATTCCTTGTAGACTTCCTGTGCCAAGTGGAGGTGGCCAGGCCTTGTGTCTAACACTGTAACCCTCTGTGCCCCTACAG
Seq C2 exon
GTGCGGCCGCGGGCTCCGCCTTTGGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035513-Ntng2:NM_133500:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.002 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0005319=Laminin_EGF=WD(100=98.3)

							
A:
NA

							
C2:
PF0005319=Laminin_EGF=PD(0.1=0.0)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000035468





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000035468f3415A, ENSMUSP00000035468f5848A, ENSMUSP00000088688, ENSMUSP00000099937
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr9:132227022-132230571 
LOW PSI
HsaINT0116419
(NTNG2)
Human
(hg19)
chr9:135102409-135105958 
LOW PSI
HsaINT0116419
(NTNG2)
Rat
(rn6)
chr3:7752863-7755119 
LOW PSI
RnoINT0103726
(Ntng2)
Cow
(bosTau6)
chr11:102342524-102345569 
LOW PSI
BtaINT0104257
(NTNG2)
Chicken
(galGal4)
chr17:6470230-6471819 
ALTERNATIVE
GgaINT1020057
(NTNG2)
Chicken
(galGal3)
chr17:7101818-7103409 
Zebrafish
(danRer10)
No conservation detected
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
  • 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"