Special

MmuINT0051742 @ mm9

Intron Retention

Gene
ENSMUSG00000075467 | Dnlz
Description
DNL-type zinc finger [Source:MGI Symbol;Acc:MGI:106559]
Coordinates
chr2:26203638-26206994:-
Coord C1 exon
chr2:26206855-26206994
Coord A exon
chr2:26206079-26206854
Coord C2 exon
chr2:26203638-26206078
Length
776 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CTGCTCTTACTGTCTTGCAGGAA
3' ss Score
11.52
Exon sequences
Seq C1 exon
GTCTGTGGGACTCGGTCATCCAAGCGCATCTCAAAGTTGGCCTATCACCAGGGCGTGGTCATCGTGACTTGCCCTGGTTGCCAGAACCACCACATCATCGCAGACAACCTAAGCTGGTTCTCTGACCTGAAGGGGAAGAG
Seq A exon
GTGAGGCCAGCTGGGAGGGGTAGGAGACAGTAAGATTGTGGCCCTGTGTGAGCCTGGATCCATTGCCTGGATCTCTCTACCTGGACAGCCCAGCTTCCACGTGGACCTGGAAGCAGTTGAATTTGAACTTCAGATGAACCATGAATGGCCCCAAATATGGCAAACTAGTTCTATGGCTCTACCTCTGTCACTGCCTGACCTCTGATCTCGCCAGGGGCCTTATCAATCTCTAGTGGAGGCTTTTTGTCCTCTGCCAACTCAGGGCAGATGGAAGGGTATGTGTCAGATTATGGACTGGGGCAGCCTTCAGTGGTGTTCCCACTTTTGGGAGAGCAGTGGGGAGGGCCAGGAGTCAGTTTGGAGGCTGTGCCTGATGCCTTCTTAATGTTCTATGAGGAGGGATCAGTGGCAGGAGTAAGGGCAGAGCCACAGAGGAGATAGCCTGTGATAAGTGTGCAGGCCTTGGGTCTCTAGGGTTCGCCTCTTAGACCTGGACTGCAGAGAAATCTCAGCTCTGATATGTAGGGACAAGACTGAAATGCAGGGATGGGTGTTACCTGGTGAGAGGCAGGGCCACGGCCCTTGGTGGTACACTGTACGAGAGAGATGGCTTCTGAGGACTTGTTAACAGATACATTTGGTGAAGGTGCCATTAGGTGCCTGCAAGGTACTGGTGTCACTTGGATGCTGGGACAAGTGTTCCAGGCCCAAGATGACCATGGGATGCCCTTGAGGGAGCCCAGAGTAAGGCTGATGCTGCTCTTACTGTCTTGCAG
Seq C2 exon
GAATATTGAAGAGATCCTAGCAGCCAGAGGAGAGGAGGTACGCCGAGTGTCTGGTGACGGTGCCCTGGAACTGATTCTGGAGGCTGCTGTACCCCCTGACACCCCAGAAGGGGATGAGGATCCCCCCAACCCTGGCAAGATGGGACAGAGCTGATCTGCATACTCCTACAGCTGCAGACTCCAGTCTTCCCAAAAGTCGCTCCCTTCACTTGGAGCCTCACAAGCCTGCTGCTGTTCCTTGTCAGTAAAAAGCCATCACCTCCAGGCACCGGGCCTGGGCTCCTGTTTTTCTCTTGTGAAGTCAGAACAACTCTGTGGCTGTAGGAGCCCAGCCTCATGCCCACCCATGATAGCCACAGTGGTGGCTTCGGGGGTGGCTTTGTCCCAGTGCAGTCGGTCTCCTTCTTAAGTAGGGCTGGATCTGGTCTTGAGTTAGGCTCGTGGCCTCAGGTGGTTTTTTGTTCCTCAGAGCTCTTTACTTCTTCCTTCTATATGACCTGCCTCCACCCCCACCCCACCCCCAGCCCTGGTGGCTTCTGTTGTTGAGCTAGTGTCCAGCCCAGCCCTGAGGTTTGGTTTCTGTAGCAGAACTGGCTGCTCTGGGTGGCCGCCGAGGAGCAGAGCGCTGCTCAGAGGCTTAGGGGAGTGATCCAGGCAGAGGCACACCACACACACACACACACACACACACACACACACACACCACACCACCCATGAGCTGCCTGCACCTCTCAATCCTCCTGTCTTGAGGTCCAAGAGGAGATGCATGGAAGTGATGAGGGCCGTATCATGCTTGCCTTGTGTGTGCTTCATCTCCTAACTTGGTTTGACATGCCTTTGGGATAGTCTTGTGTTTAGGAAGTCAAGCAGATGCACAAACAGGCTTTTTGTGGGAGTTTCTGGGCCCTGTGACCTTCAACATCTGGCAGGGGGGATCCTGGGACAGGGGGTGGAGAAGGCAGTTGACACGGACACAATGCTTCCCTGGCTCCTGGGACCCCAGCTAGTGATTAGCAGTTCACTCTGGGCCCTGGGAGGCCGGGTGCACTTGCAGTCTGTGCCTTCCCTCGATTACCCCCTGTCCTTCCCTCAGCAAACACCCTGCTATTATCCCCACCCTAGCCTCCTGTGCCATTTGTACAAACTGTCACATCCTGGAGGAAGAGCCAGCCTCCGACTCCAGCCTGCTCCCTGTGGAGGACACCGAGGTCAGAGGAGCCGATTGCCTTGCTTGTGGGCCTTCAAGTCAGGAACCAGTGGAGCCTGGCTGGGCTGCCTCGTCCTCAGGTGTCTGGGCCAGAGTTGTCGGAGGCCTGGGGCTGGCTAGACCTGACAGTACAGAGCTGGATCTAGCGTATCTCCTCTAGATGGGAAGCCCATGATTTGGACTTACCTCCTGTGTGTGTGTGCCTTCTGCCTGTTGCTGCTCCAGAGCCTCCTTCCCAGGGAGGGTCTCCTGTGCATCAGGATTTCACTTGAAGCTTCACTTTCCACATAGTCCATTCTTGCAGAGTCCATACCTCACCGTGTTCTGCAGACTCACCACGGGCCACAGTTCCCAATCATGTGGCCAGGTTCCTGACAGCCTGGAATTGTTCTGACTAGTTTAGTTCTCCATTCCTTCCTCCCTTTCAGTGGAGACTAAGTAAAGTACCACCCCAACATCACAGCACCTCTTGGCCAGACCAGCGTGACTCCTGTGGGGTGGCTTGGCTCTCTCAATACATCCCCTTCCCATGGCAGCCATCTCTGGCAGCTGGCCTCCCGGCACCTGAGCAATTTCAGCCTGCCCAGAAGCGTGGCTGCCTCTAGAGCAACCACAGTGCTCTAGACGATAGAGAATTCTCTAGGCTATTTTACTGGTCTTAGCTATGTTCTGCTACCCTTGGCCCATCAGGACACTCCCCAAAGGGCCCAATCAGGATCTGAGTTACATGGGGTGCTGCCCACTACATGAACATTGAAGACAAGTTCCTCTGTGGCTTAGATTGGCATAATCCAGCGCTTGTAATGGGAACTGCTAAGACATAGGAAGCTCTGGGGCTGGGTCCAATCCAGTCGGGGGCGGGGAGGCTGCTTGGAAGGGCTAGTCCTGAGTGTTTACCAATGTACTGTGACATCCCTGGCTTCTGTTTCCTGTCTCTGGAAAGTCAGCATAATGGAGAACAGCAGAGAAAGCAGCAGTAGCGGCTCTGGCCCCGCCTCTCACTGTCGCATGCAGCAGAGACATGCTGCATGATCTCAGGGGCCTTGTACACTGCACTGGGTAAGCCAATACCATGTCCTGGGAAGGCTGACACAAATTCCAACAGAAGCCACACTCACTTGGCAGACTTTTATTTTTGGGTAAAACAAAACAAATGTACCTCTCGGGTCAGAAAGGACCCATGAACAACATGGCAAACACATGTAAGCAATAAATACGCATGTACATTCAAGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000075467-Dnlz:NM_026828:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.471
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0115514=HypA=PD(55.2=78.7),PF052078=zf-CSL=PD(61.4=57.4),PF051807=zf-DNL=FE(67.6=100)

							
A:
NA

							
C2:
PF051807=zf-DNL=PD(19.1=25.0)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000028295





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr9:136362181-136362988 
ALTERNATIVE
HsaINT0050623
(DNLZ)
Human
(hg19)
chr9:139256633-139257440 
ALTERNATIVE
HsaINT0050623
(DNLZ)
Rat
(rn6)
chr3:3796757-3797551 
ALTERNATIVE
RnoINT0049798
(Dnlz)
Cow
(bosTau6)
chr11:103874326-103875043 
LOW PSI
BtaINT0051300
(DNLZ)
Chicken
(galGal4)
chr17:7916779-7917234 
ALTERNATIVE
GgaINT0126264
(DNLZ)
Chicken
(galGal3)
chr17:8605878-8606333 
GgaINT0126264
(DNLZ)
Zebrafish
(danRer10)
chr21:4082106-4083044 
LOW PSI
DreINT0058761
(dnlz)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CAAGCGCATCTCAAAGTTGGC

				
R: 
GCTTGTGAGGCTCCAAGTGAA

				
Band lengths: 
345-1121

			

		

	





	
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"