Special

MmuINT0093696 @ mm9

Intron Retention

Gene
ENSMUSG00000002020 | Ltbp2
Description
latent transforming growth factor beta binding protein 2 [Source:MGI Symbol;Acc:MGI:99502]
Coordinates
chr12:86134569-86135016:-
Coord C1 exon
chr12:86134894-86135016
Coord A exon
chr12:86134695-86134893
Coord C2 exon
chr12:86134569-86134694
Length
199 bp
Sequences
Splice sites
5' ss Seq
GAGGTACTA
5' ss Score
6.36
3' ss Seq
AACTCAATGGCCTGTTTCAGATG
3' ss Score
5.71
Exon sequences
Seq C1 exon
ATGTCAATGAGTGTCTGACCCCTGGGATATGTACCCATGGAAGGTGCATCAACATGGAAGGCTCCTTTAGATGCTCCTGTGAGCCGGGCTATGAGGTCACCCCAGACAAGAAGGGCTGCCGAG
Seq A exon
GTACTAAGATGTAGCACCCTTCTTGGCGCATGCAAATCAAGTCTGCAGCATCTTTCCCTCTGCATGCCAACCCTGAATTTTCCTAAAGCCTGTCCTACCCTTTGCCAAAACCTATCCCTTCTACACTCCCTGCCCACCTATGAGTCTCTGGCATATCTGCCCTGCAGAATCCCATACAGAACTCAATGGCCTGTTTCAG
Seq C2 exon
ATGTGGACGAGTGTGCCAGCCGAGCCTCGTGCCCCACCGGCCTCTGCCTCAACACGGAGGGCTCCTTCACCTGCTCAGCCTGTCAGAGCGGGTACTGGGTGAACGAAGATGGCACTGCCTGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000002020-Ltbp2:NM_013589:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF062476=Plasmod_Pvs28=PD(6.4=19.0),PF0764510=EGF_CA=WD(100=95.2),PF0764510=EGF_CA=PU(0.1=0.0)

							
A:
NA

							
C2:
PF062476=Plasmod_Pvs28=PD(21.7=23.3),PF0764510=EGF_CA=WD(100=95.3)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000128882





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000002073, ENSMUSP00000105883, ENSMUSP00000127693, ENSMUSP00000132690
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr14:74509860-74510090 
LOW PSI
HsaINT0097547
(LTBP2)
Human
(hg19)
chr14:74976563-74976793 
LOW PSI
HsaINT0097547
(LTBP2)
Rat
(rn6)
chr6:108514607-108514827 
LOW PSI
RnoINT0087541
(Ltbp2)
Cow
(bosTau6)
chr10:86198067-86198286 
LOW PSI
BtaINT0087886
(LTBP2)
Chicken
(galGal4)
chr5:37220815-37220942 
LOW PSI
GgaINT1017187
(LTBP2)
Chicken
(galGal3)
chr5:40349611-40349738 
GgaINT0058993
(LTBP2)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
AATGAGTGTCTGACCCCTGGG

				
R: 
CAGTGCCATCTTCGTTCACCC

				
Band lengths: 
235-434

			

		

	





	
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






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