Special

MmuINT0050117 @ mm10

Intron Retention

Gene
ENSMUSG00000029754 | Dlx6
Description
distal-less homeobox 6 [Source:MGI Symbol;Acc:MGI:101927]
Coordinates
chr6:6865078-6868568:+
Coord C1 exon
chr6:6865078-6865271
Coord A exon
chr6:6865272-6867040
Coord C2 exon
chr6:6867041-6868568
Length
1769 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATT
5' ss Score
8.55
3' ss Seq
AATTACTACATGTCTTGCAGGTG
3' ss Score
8.11
Exon sequences
Seq C1 exon
ATCAACAAAAAACGACAGTGATCGAAAACGGGGAAATCAGGTTCAACGGAAAGGGGAAAAAGATTCGGAAGCCTCGGACCATTTATTCCAGCCTGCAGCTCCAGGCTTTAAACCATCGCTTTCAGCAGACTCAATACCTGGCCCTTCCCGAGAGAGCCGAACTGGCTGCTTCCTTAGGACTGACACAAACACAG
Seq A exon
GTAATTCCCGGGAAGCCCAAGTACCCCTGAAATGCTGGCCCTGCTTGATAACCGTGCAGAGAGCATACCAGGAGGAATTCTTGGCCTAGTCAACCAAGGATGGAAGGAGCTAAATGACAAATGCCCGTGCTCCAGTTGTGCACTTTCCTGGGATCACACAGTTTGGAACAAATGACATGGTATTGAATACTGAATTGGATTTGCATATACACCAACCCTCTGCGACCCCAGCTGAGCCTAGGATCTTTTGGTGAACAAATTCAATCAAATCTTATTCCAGAGCAGAATAACACGAAGTAGAACAAGTGTGTGTGTGTGTATGTGTGTGTGTGTGTGTGTAGTATCCAGCTAAGAAGCAAAATAAGGCCTTTCTTAAGGACCCTTTAGTGACCCTTAGGAATTAATATTAATTTCAACTCATTGTCATAGGAAGGAAACTTATGAGCTGAGACCAGGAGCAAAAGTTAGACTCTAGCAGCTTAATAAAGACATCCATGTGTAAGCCATTCACTCCGGGATGGGTAAGACAGGACTTTCTGAAGATTGCATTAAGCTCTGTAGTTGAATCATTCTGGTACCAAATAGTGCAGGCTGAGGTACCTCCCTGGAGCACAGAACTTGACAGAATTGAGAAACAAAGAGAATGTTCCCCAAATCACGGCCTGGGACACCACAGATAATAAACAGTCCTGCTGACCTGAAAAGTATACTGGACATTTCAGATTTCACAGAAAGGGGCCCATAGGTGAGTATATCAGCCTGCACTCAAAAGCCAGCAGTCAAGAGAACTGCACGGGATGCTAAGGCCTCTTCTGATGGGCATCATCTTCATCCAGCAAGGGTCTAATAAGACAGTAGCCAAGACCTTACAGAATGGTGTCTTCAGGCCGCGTCCCTGAACTCTTCTCACTTACCCTGGTTTCTACTGCATGTTGCCACTGAAAATGTATGAGGTTTGCTATGAAAGGGCTCTAGATGCTCCGTGACTCGTATTCTTGGGAAAATAGATTCTGGAATTGTAAAGGTAATGCTACATTGTAGGTTTCCTTTCATCTAGAGATTTGGGTTGTTGACTTAAATAAGCTGCCAACTTAGATTCCTGATTCTGTAGTTGTCAGAAGCCTTTTGACTTTTAGTAGCTACCCCAACAATCATGTGATGATTGATGACTTCTGTTTGCTTAAGCAACATAGGAGGTAGATAGTGGGGGTTGATGCATTTCTTAATCCTTGCAGGACTGGAGAAAGAGATCCCAGGCATATGCCATGGTGTGTGCACGATGTGCATAAGTATGTTCAAGGTATTTTGCTATGAACATACAACCTTTAATCAATTCATAATCGTTTACTACTTGATATGCATAGCATAATAAATGTGGGGGGTTGGTGAATATAAAAAATGGAATAGACCAAAGGAGGTAAATTTAGTTGTACAATTGTGAGCCAAACTCTATTTCACTTAAAAGTCCTTTGTAAAATTTTGGGTCCACTGATCTCATTTTATTTCTTTCTAATTTTATGCTGTTACTTTAAAAACCCCAGGCTATAGGATTAAATCCAGGAATCACAATAAGACATCTAGTAGGCCTAGAGTGAAGGGATGGAGATGGTTTGAAAGAGGGGAATGAGGGGGAAGGGAAGGGGCTTCTTGGAATGGTAATGGTTGTTTTGTTTGCTTGTTTGTTTGTATATTGCTTCTTAAGTCTGGGGTGACACTGAAGGCACCAGTATGATGTTTATCTGGCCTGACAATTACTACATGTCTTGCAG
Seq C2 exon
GTGAAGATATGGTTTCAGAATAAGCGCTCTAAGTTTAAGAAATTGCTGAAGCAGGGTAGTAACCCACACGAGAGTGACCCCCTCCCGGGTTCAGCAGCCCTGTCACCACGATCACCAGCCCTGCCTCCAGTGTGGGACGTTTCTGCCTCTGCCAAGGGCGTCAGTATGCCTCCCAACAGCTACATGCCGGGGTATTCACACTGGTATTCCTCACCACACCAGGACACCATGCAGAGACCACAGATGATGTGACTTCTCTGAGTGAACGCCTACGGAGCTTCTGAAGGAGGCAAGGAGGATCCAGGACTCTGTTGTATCTGCCAAACAGCCTAAGCATTGAGCTCAGAGCAACTGCCCTGTGATCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCCCCCCTCCCTCCCTCCCCCTCTCATCTCCTCTCCTTCCTTTCTCTTTTCCTCCCTTTCTTTCCTTGTTTTTCATCCCTTTTACTCGCTCTTCTTTATTTCTTGCCTATCTTTCCATCCTTGCTTTCTTCCCCTTCCCTCCTCTTCTGCAATTTACTGTCTTTAGTAACCTTAATAAGTAACTTTGTAATAAACACACACACACATACACACACACACACACACACACACACACACACACACGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGCTTTTGTGCCAGTGTTCTGGAAACCCATCACTGTAAGGATATTTTCCTTCACAGTCTGGGATTCAGGCCCCGAGCCTCCTCTTTAGTACTCTCTATCCAAATGACTTTTTTTTTTTTTTTTTTTACAGACATTCTCCACCGGCAGAAGAATCTGCACAAACATGGCAGCATTTTTACTTGTTTAATGAGTTTAAGACATTACATGATAAAAAACAAAGATTTTGGACTCCTGGATTTTTATTTACCAATCTGAGACTGAGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGAGGAGGAGGAGGAGGAGGAGGAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAAAGAAATGGAAGAACCCCCCCCCCAATATCTCTTCAAGAAAGAAGAAAATTTGGTTGTAAAAAGTAGAACATTGCCACAAAGGAAACACTGCATGTCTTTTCAAAATGCAATGATCAGGAATGACAACTCAGCTAATACAAACAGTAACAGCAACAAGAAAGATGCTCTTTGCATAACCCACCTCCAAACTCTGAACTGGAAAGAAGAAAGACCAAGGAAAACAACCAAAATCACCATTCTATTGCTTTGACACCTTTCTTAGGTGAATAGTGGCATTCACTAAGCTAATAGGGACGTTTATATCAAGGAACATTTCTGTATATATTGTTGAATTTTAGTTGTATATATACTTTGTATGTTTTTGTCTTCTTTCATATATGGAGTAAAAGCCACAAAATGTTGGGAGTGTCCTCTACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029754:ENSMUST00000160937:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.374 A=NA C2=0.554
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0004624=Homeobox=PU(73.7=64.6)

							
A:
NA

							
C2:
PF0004624=Homeobox=PD(22.8=15.5)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000124204





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000031768, ENSMUSP00000128585
  



Associated events







Other assemblies


mm9




Conservation


Human
(hg38)
chr7:97007832-97009795 
LOW PSI
HsaINT0048745
(DLX6)
Human
(hg19)
chr7:96637144-96639107 
ALTERNATIVE
HsaINT0048745
(DLX6)
Rat
(rn6)
chr4:32375123-32377001 
ALTERNATIVE
RnoINT0006732
(AABR07059679.1)
Cow
(bosTau6)
chr4:14278955-14280799 
ALTERNATIVE
BtaINT0049791
(DLX6)
Chicken
(galGal4)
chr2:24573265-24574609 
ALTERNATIVE
GgaINT0099740
(DLX6)
Chicken
(galGal3)
chr2:24408213-24409557 
ALTERNATIVE
GgaINT0099740
(F1NCZ0_CHICK)
Zebrafish
(danRer10)
chr3:34542352-34551391 
LOW PSI
DreINT0057764
(dlx4a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CGAACTGGCTGCTTCCTTAGG

				
R: 
AGAGTCCTGGATCCTCCTTGC

				
Band lengths: 
347-2116

			

		

	





	
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
  • Ribosome-engaged transcriptomes of neuronal types
  • Neural differentiation time course
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types





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