Special

MmuINT0153424 @ mm9

Intron Retention

Gene
ENSMUSG00000035459 | Stab2
Description
stabilin 2 [Source:MGI Symbol;Acc:MGI:2178743]
Coordinates
chr10:86350517-86353550:-
Coord C1 exon
chr10:86353474-86353550
Coord A exon
chr10:86350643-86353473
Coord C2 exon
chr10:86350517-86350642
Length
2831 bp
Sequences
Splice sites
5' ss Seq
CAGGCAGGT
5' ss Score
2.53
3' ss Seq
GTCCTCTCTCCCTTGTGTAGCCA
3' ss Score
8.62
Exon sequences
Seq C1 exon
CTGCCTTCTCGATCCAGATGGCAAAGCCTCGTGCAAATGTGCGGCAGGATTCCAAGGGAACGGAACGGTCTGCACAG
Seq A exon
GCAGGTGGAGCGGGGATCTGCTAGGGCCTTGTGTGGGCTGAGAGATCTGACTGGGCCGCAGGAGCTGGTGCCAGCCACTGGTGCTGACTCACATGAAGCTGACCAACTAATGGTGGCCAGGGACAAGGATGCCAGCTCTTCATGGCTGGGGCATGTTGGTTTGTTCAGGATGGGCAGGCAATTGCATCTGTTTTTTTTTTGTTGTTGTTGTTGTTTTTTTGTTTTTTTGTTTTTTGTTTTTTGTTTTTACACAAAACTACGCTGCTTTTGAGCAGTACTACACAACCTTGAGAGCAACTAGCGTCACCTCCTGGCTTTAAAAGCTGTAGATGATTGGCCAAGGGTATGGCTGAGTCACTGGGATTGAGCCCTGGTTCTTCCAAGGTCCAGATTTGTGGCCTTGCAGGGGTGTTTAACTATCCTGAACCCCTTGGCTCACTTGTAAAGAAAGCATGAACCACCTCCCTTGCAGAGGGCTATTAGAGCAAACTAGCCTCTCTGAATACAGCAGCACACTAGGGCAGAGGGCAGAGGGCAGAGGGCAGAGGGCAGGCCCTGGCCTCATCATTAGACCCTGAGTCTGAATTTAAATACTTGCAATCTGTGATACTTCAGGGATATTGCTTGACCGTGCCTCTCACCATGTACTCTGTGGGTGATAAGAGAATGATTTACACTGGGGAGTTGTATGTGATGCAGATTATGCCTATAAAGTGCTAAGAAGTGTGAGGTATTACTCTCAGGGTACATAAACATACTCATCACTAGAAAAGAAGAAACTCAGCAATCTTTCAGTTGCCTGGCACCAGGACAAATGCTGTTCTCAGCCTTAATCACTTCTCTTTGCAATGAAGCTGACTACAGATTCATGGATGTTGAGGATGCTGAGAACTAGTGACAGAGGAGTGCTCAACCCTAAACTGCACATTTGTAGCCACCCTCTAAGGCTTAGGGAACACAGAGGAACAGGAACCAGAAAGAATGTAAGAGCCAGAAGGTAGGGAAAAGGGTCTGGAAATATCCTCTTCTGCATGTGACATGACCATTGCAACTCTGGTCTCAGCTTCAGCTGCCTGCTCTGGGCCTGCCCAGGACTGAGCCTGTACTCAGTCAACTGTGGACTGGGGAGGAGCTCTGTGGGCTCCTCCCTCTGATGAACTGTTGGCTACTGGTAGATCTGAGGAAAACAAAAAGACACAAATGTGGAGAACTGACTCAGAGAACTCTCCCCCTTGTGTTGGCACTGACTGGAAAAGTCTTACTTATTTGTAGTCCTCCCTTCTGGAACAAACCACTAAAGTTCGGATGGGAGTCAGCAGTAGAGAAGGCTGCTGTCTGTGCTGAGACCGTGTGTGGTAGAGACATGGGAAGCCCAGGAGAGCCTCTGCCCATCTCTACACTGCCCATGAGGTGGAAGGACGGGGCTTAGAGCCATCGCACCTCCTCTGCTGTGGGAAAACCACAGAAGACTGGGTGCTCTAAGTTCCACCAGGCTGCATGCATTAAAAAAAAATAATAAGTGAAAGAACCCAAGAAGTTCTCTAGGACCATTTAGGTTGTTTTTTTTTTTCCATTTTGTTCAATAAATATTTATGAGCTACAATTTATAAGCACTAACTGATCCATTTTGAATCAGTGCATAGGCTCATGGCATACAACAAACACAAACCCCTGCACCCACCCATTCCATCAAAACCCAGCATATTTCAGTCAAAAATCCCCATTTGAACCAGCTCACATTTACCCTACTAATCCCTGTTCCTGCTCAGAAACCCTCGTCTGCCTTCTGCGACATCAGAGAGCCTTCTTGTCTCTTCTAGATTCTTGTGTGAATAGAATTTTGGTTGCTGGTATGTCTGACCCCTTTCAGTCACTCCTTTTGATGGTTGAGTTCCTATGATTGTGTAGATAAACCACCACCTCTATACCCATTTATCATCTGATTGATGTCTTCAGGCTTTGACTATTATGAATAAAATGTCTATGAATACTCAACTTATTCACATACACATGTACACACACACACACACACACACACCCCAGAAGCTTTTAGCATCATTTTTTTCAGTACCTTGTTCTGGGGGCTTAGGCCCAGACTGAGGCAGAACAGTTAGTTTTCTAGACCATCTTAGACCAGGGACTCTCAGGGGAAACAGGCTGCCCTGACCCTGAGGCCACCTGTTCCCTGCAGAGAGAAGCATACAGTCTGATGGTCAAATCAGCTGGAAAAGACAAATAGTGATTTTTTTCCTTGTCCTCTGTCTTAGTCAGGGTTACCATTGCTATGTTGATACACCATGACCAATACAACTTGGGGAGGAAGAGGTTTGTTTGGTGTCTGCTTCCATACCAAACTCTTCATCATTGCCGAAGTCAGGACTGGAACTGCAATAGGGCAGGAACTGGAAGGAAGGCAGGAGCTGATGCAGAGGCCATGGAGGGGTGCTGCTTACCGACTGACTCACATGGCTTGCTCAGCCTGCTTGCTTATAGAACCCAGGACCACCCTGTAGCATTGTGACACAGCCCACAATGGCCCAGGCCCTCTCCCATCGATCACTAATGAAGAAAATGTTCTACAGGCTGGCCTAAAGCCCAATCTTCTGGAGACATTGTCTTCATTGAGGCTCCCTCCTCTCCAACAACCATAGCTTGTGTCAAGTTGACATAAAACTGTTGAGCACACTCTCTGTGTTGAGGAACTAGCCACATAATTCCAATGCATGCTGGAGTTGTTCTAAAGGCTTCCTTCTATCAATGGCTCAGGTTAAATAAAAATGTCTCCTCTGTCTGTTTCTCCTTCTGCTCTGTGTCCTCTCTCCCTTGTGTAG
Seq C2 exon
CCATCAATGCCTGTGAGATCAGCAATGGAGGGTGCTCTGCCAAGGCTGACTGTAAGAGAACCATCCCAGGAAGCCGGGTGTGTGTGTGCAAGGCAGGCTATACCGGCGACGGCATCGTGTGCCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035459-Stab2:NM_138673:41
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:
PF129472=EGF_3=PD(66.7=88.9)

							
A:
NA

							
C2:
PF126622=cEGF=PD(10.5=4.7),PF129472=EGF_3=WD(100=86.0)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000048309





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000048309f5608A, ENSMUSP00000125263
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr12:103712444-103713642 
LOW PSI
HsaINT0160058
(STAB2)
Human
(hg19)
chr12:104106222-104107420 
ALTERNATIVE
HsaINT0160058
(STAB2)
Rat
(rn6)
chr7:27414221-27416382 
LOW PSI
RnoINT0144367
(Stab2)
Cow
(bosTau6)
chr5:67726895-67730339 
LOW PSI
BtaINT0141855
(STAB2)
Chicken
(galGal4)
chr1:54950630-54952110 
LOW PSI
GgaINT0112646
(STAB2)
Chicken
(galGal3)
chr1:56844715-56846195 
LOW PSI
GgaINT0112646
(STAB2)
Zebrafish
(danRer10)
chr4:10749980-10750060 
LOW PSI
DreINT0156747
(stab2)
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"