Special

MmuINT0177734 @ mm9

Intron Retention

Gene
ENSMUSG00000028952 | Zbtb48
Description
zinc finger and BTB domain containing 48 [Source:MGI Symbol;Acc:MGI:2140248]
Coordinates
chr4:151396805-151400128:-
Coord C1 exon
chr4:151399887-151400128
Coord A exon
chr4:151396917-151399886
Coord C2 exon
chr4:151396805-151396916
Length
2970 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
GTGGCCTCTCTTCCTGGCAGGAA
3' ss Score
9.3
Exon sequences
Seq C1 exon
TGGGAAGTGGTGGTCCAAGTGGAGGACGACAGGGACGGTGATTACGTATCTGAGCCTGAGACTGTGCTAACCAGAAGGAAGTCAAAAGTGATTAGAAAACCCTGTGCAGCCGAGCCAGCCCTGGGTGCGGGTTCTCTCACAGCCGAGCCCACTGACAGCAGAAAAGGTGCAGCCGTTCCGGTCGAATGTCCCACATGTCACAAAAAGTTCCTCAGCAAATATTACCTGAAAGTCCACAACAG
Seq A exon
GTAAATGCTCTGCTTGTTTTAATTTCCTTTTCCTATCTGCCCTTCCGTGTTGCAGCAGAGGGTCCTGTACTCCCCTCCTCCGGGCTCTGCGGGGCTGGGGATCCTAGGTCAGGCCCAGACAGTGGCTGGTCAGCATGCCACCTCTTCCTGTCTTTCTGTGATTGTGGGTTTGTGGATACCTGGTCAGTAGATTCTACCCACTGTGGAGTTTGACTGTGGGCAGGCCTCTGGCCCCTTCCTGAGCTGAAGCTGAGGTCTGATAGACAGTGTGGGCTGTGACAAGAGGCTGATGGAGAGGACGGAGGCTGCCTGTGTTTCTGGGGATGTTAGCTTTGTAGGTCAGTGATGTATAAGGAGCCATTTGTCCAACAGGGACCTTTTATGACTTGGAGGTTTGTCCTCTTGTTAGTTTTGTCAGGCTTTTTGTTTGTTTGTTTTTTGAGACAGGGTTTCTCTATGTAGCACTGGCTGCCCTATAATTCTCACTGTGTAGACCAGGCTGGCCTCCAATTCAGAGATCCACCTTCATCTGCCACCCAAGTGCTGGGATAAAAGCCATGTGCCACCATACCTGGCTTGTTTTGAGTTCAAATTACTTGAGATCCCATACCACATGCCAGGCATGGTGGTGTACACCTTTGATCTCAGCACTTAGGAGGCAGAGGTAGGCAGATCTCTGGGTATTGAGGTCAGCCTGGTCTACAGCCTGAGTTCCAGGACAGCCAGGGATACACAGAGAAGTCTTGTCTCGAAAAAACCAATGCCCTCCCAACACACCGAAAATAATAATAAAAGTGAGTGCTGTAGACACAGCCCCATCTCAGCTGCTAAGTAGACATACTAGTCTCCTGCAGTACCGAGCCAGGCTGTGTTGTCAGTGCGTCACTCTGGCAAGCCACTGGTGCTCACCTGGTGTAGGAGTGAGACCTGTTTGTCATGCCTGGGCTTTGGCCTTGGGGTAGATGAGGCTATCCATCTCTGCCCATGCTCCCTTCATTCCTTCCGTGGTCTGTGGTTCGCTGATGGCCCTGAGAACTGGGAAGGAATGGCTTCAAGAGATGCTTATATCTAGGCGTGGCGGCACTTGGAAAATAGAGGCACGAGGCTTGCTGGAAGCTTGAGTGTGTGTGGTGAGTTTCAGGTCAGTGAGGACTACGCAGGGATACCGTGTCTCAAAAGAATAATAGAAAATGAGGTCCTTGCAGTGGCAGGGACTACGGGGGCGAGGATTCTTAGAGAGAAGAAGATGAGAGTAGGTTTGGCTTCTGGACGGACATACAGGAGACTCAGTGCTACCCATGGCGCTGAGGTCAGGGTTGGTTTGGTTTATTCAGCTGCTGCTGCACTTGGGATGAGATGATGTAGCCCTTGAAGATGAAGGTCTTCATGGCGCTCGGATGCAGCACAGGTACAGCAAGCCTTGTGTCTTGCAGGAAAGGAAGCAGTACTTTAGCATGAAGCAGACAGCCTGAGCCTGCACTTTTTGGGAGTTCCAGGCCAGTTGGGGCTTCAGTGTGTGGCACCCTGTTTAGGGAGGTAGGAGAGTAGGGGCAGAGGAACTGGGAATTGGAGTCTACTGTATAGATAAGGTTAGTGGTATTTATTTATTTATTAAGAAGGTGGGGTGCTTCCTCCTCCCTTGTGACCTTCAGTGCTAGGGACTGAAGCCCAGGGTCTTTGCCACTGAGCTATACCCCAGCCCATTTGTAGTGAGACACGCCTTACTAAATTGCCTAGGCTGATGATCCTTCTGCCTCAGCTTGGAGCAGCTGGGAATGGGCTGTAGCTCAGTCTTTTGTTTTTTTTTTCTTCCCGAGACAGGGTTTCTCTGTAGCCCTGGCTGTCCTGGAACTCATTCTATAGACCAAGCTGGCCTGGAACTCAGAAATCCGTCTGCCTCTGCCTCCTGAGTGCTGGGATTAAAGGCGTGTGCCACCACGCCCGGCTGTAGATCAGTCTTAATCTGTTTGCCTGCCAGGTGAGGCCCCCATGTTCAGTCCCCAGGATGCTAGGGGGGAAAGATCCAGACCAAGTGGCTGAGGTTACACTGCCGGCCTCTGCCACCCGTCTAGGCTAGGAGACTTGGAGGATGTGTGGAAGCCAGTCACTGGTGAGAGTCTTCTGGCTGGGAGAGGAGCTAGCTGGCTGTTGTGAGTGGTAGGGCCTGACCTGGAGTTGGCATGGCATGGGGTAAGGTCAGTGAGGGGCAGGCTGGTTCACTGGCTACCCATGTCCTCTGCCCCCTGGGCTCTCAATACAAAATAAGCACTGGCAGGTTGTGAGCCCAAGGGGCCACCTTTTCTGCAAAGAGTCTGGACTTAATGGAGCCTCCTGGAGAGATAGGTAGGGAGCCAGGAACCAGTGGTGACTCAAGGACTCCATGAACTGCTCCAGCCACGCCCTTGCTGGCACCTGTGAAATGGACGCACAGAATCTGGTTGTGGAGTCCCACATTTACTTCTTTACTGAGTGTGGGAGGGTCACGTGCAGACGTCAGTGTACAGCTTGTGGGAGTTGTTTTCTTCACCTCATGTGTCTCAGGGATTGAACCTGGGTCCTCTGGCTTCTCAGCAGCAAGTGCTTCTGAGCATTGAGCCATATCACCTGTCCTGCCATGGTGTTGAACGTGGGGTCCGCAGAGGGGAAGATGTCAACCAGGTCTTGTCAGTGAAGTTTTGAGGCAGCCATTTAGGGAGGCTGGCAGATGAAGGGCTGGCTCTTCCTGGCTCCCTCCTGGCTGTCTTTCCATGGCTACTATTTCTTCCTGAGGCTCTCTAAGCTGGAGGGGGTTTCTAGCCTTCCCTTACATGAGCAAGCTGGGTGTCGCTAAGTCTACATGGTTAACTCCAGCTAGACTTAGGACACTTCTTCCTCCTAATGAGCACAGCATGTCTGTGGCAAGAGCTGGAGGATCAGAGAGCTGGGAAACCCTCTTAGCCCCCACGCCTCTGTGGCCTCTCTTCCTGGCAG
Seq C2 exon
GAAACACACTGGGGAGAAACCCTTCGAGTGTCCCAAATGTGGGAAGTGTTACTTCCGCAAGGAGAATCTCTTGGAACATGAAGCCAGGAATTGCATGAACCGCTCAGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028952-Zbtb48:NM_133879:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.461 A=NA C2=0.088
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF100834=DUF2321=PU(41.1=45.7),PF145221=Cytochrome_C7=PU(47.1=40.7),PF134651=zf-H2C2_2=PU(24.0=7.4)

							
A:
NA

							
C2:
PF100834=DUF2321=FE(41.1=100),PF145221=Cytochrome_C7=PD(51.4=94.7),PF134651=zf-H2C2_2=PD(72.0=47.4)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000067521





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000114726, ENSMUSP00000117079
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr1:6582300-6585918 
ALTERNATIVE
HsaINT0184670
(ZBTB48)
Human
(hg19)
chr1:6642360-6645978 
HsaINT0184670
(ZBTB48)
Rat
(rn6)
chr5:169194890-169198245 
ALTERNATIVE
RnoINT0167020
(Zbtb48)
Cow
(bosTau6)
chr16:47664104-47666881 
ALTERNATIVE
BtaINT0163647
(ZBTB48)
Chicken
(galGal4)
chr21:574644-575812 
LOW PSI
GgaINT0134596
(ZBTB48)
Chicken
(galGal3)
chr21:555540-556708 
LOW PSI
GgaINT0134596
(ZBTB48)
Zebrafish
(danRer10)
chr23:25022627-25023843 
LOW PSI
DreINT0177295
(zbtb48)
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"