Special

MmuINT0177740 @ mm10

Intron Retention

Gene
ENSMUSG00000028952 | Zbtb48
Description
zinc finger and BTB domain containing 48 [Source:MGI Symbol;Acc:MGI:2140248]
Coordinates
chr4:152020190-152020704:-
Coord C1 exon
chr4:152020544-152020704
Coord A exon
chr4:152020279-152020543
Coord C2 exon
chr4:152020190-152020278
Length
265 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
GTGGTCCCTTTCCTCTGCAGCTG
3' ss Score
11.41
Exon sequences
Seq C1 exon
TTTGGACAAGCACAACCGCACCCACACGGGCGAGAGGCCTTTCAGCTGTGAATTCTGTGAGCAGCGCTTCACTGAGAAGGGCCCCCTTCTGAGGCATGTGGCCAGCCGCCATCAAGAGGGCAGGCCCCACTTCTGCCAGATCTGTGGCAAGACCTTCAAAG
Seq A exon
GTAATTAGTAGGCAAGCTGTAGGAGAATAGTGGGCCTGGCTTGTTTCCTGCCCGCCTGGGTTGGAGGGTCTACACAGAGATCAAGGGCACCGGTAGCTTCTGCATGCTCCTCAGAACCTTCAGCAGCTCCATCTTCCGTGTGCTGAGATGAGAGTGGAGCTTCTGTGACAGCGTGGGGACAGGGCACCCTGCACCTGGGCAGTGGTGACCTCAGTGCGCTGCTGTAGGGCCTGCTCCTAACGCCCGTGGTCCCTTTCCTCTGCAG
Seq C2 exon
CTGTGGAACAGTTACGAGTGCACGTCAGGCGACACAAAGGTGTGAGAAAGTTCGAGTGCACCGAGTGTGGCTACAAGTTCACGCGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028952:ENSMUST00000155389:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.567 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF134651=zf-H2C2_2=WD(100=46.4),PF134651=zf-H2C2_2=WD(100=46.4)

							
A:
NA

							
C2:
PF134651=zf-H2C2_2=PD(0.1=0.0),PF134651=zf-H2C2_2=WD(100=86.7)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000067521





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000114726
  



Associated events






Other assemblies


mm9




Conservation


Human
(hg38)
chr1:6588443-6588755 
ALTERNATIVE
HsaINT0184676
(ZBTB48)
Human
(hg19)
chr1:6648503-6648815 
ALTERNATIVE
HsaINT0184676
(ZBTB48)
Rat
(rn6)
chr5:169192270-169192552 
ALTERNATIVE
RnoINT0167026
(Zbtb48)
Cow
(bosTau6)
chr16:47661536-47661798 
LOW PSI
BtaINT0163653
(ZBTB48)
Chicken
(galGal4)
chr21:571270-571427 
ALTERNATIVE
GgaINT0134602
(ZBTB48)
Chicken
(galGal3)
chr21:552166-552323 
ALTERNATIVE
GgaINT0134602
(ZBTB48)
Zebrafish
(danRer10)
chr23:25015488-25017329 
LOW PSI
DreINT0177301
(zbtb48)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TTTGGACAAGCACAACCGCA

				
R: 
GCGTGAACTTGTAGCCACACT

				
Band lengths: 
245-510

			

		

	





	
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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