Special

MmuINT0153427 @ mm9

Intron Retention

Gene
ENSMUSG00000035459 | Stab2
Description
stabilin 2 [Source:MGI Symbol;Acc:MGI:2178743]
Coordinates
chr10:86341575-86346600:-
Coord C1 exon
chr10:86346529-86346600
Coord A exon
chr10:86341695-86346528
Coord C2 exon
chr10:86341575-86341694
Length
4834 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
CTTCTTGGCAACTTTACCAGAAT
3' ss Score
3.36
Exon sequences
Seq C1 exon
GCCGTCTGTAACTGCTTGCCCAAGTACACTGGAGATGGAAAGGTCTGCACACTCATCAACGTCTGCTTAACT
Seq A exon
GTGAGTATGCTTCCAGGCTGTAGCCTCGGAGCCTTCTCCCACCATCTAAGGGATACAGAGGCCAGGTGCTCTCCCCTTGAATCTCAGAGCTGGGTAATAGGCTCACTTTTCCTCTTGTGTGCCATGGTCATATTGGGAAGGATGGAGAGAACAGAGTCTCTCCACAACCTGTCCCTTTGGCTACAAGATTCAGAAGGGACCTAAGTGCACAGAGTTGCTCTGGCATTCATCTGATGCAAGCGTCCTAAAGCAAGCTGGATTCATTTCCTAAAGTATGGGAGGGGCTATAAAGCATTCGTGAGTCAACTAACAAGCCTTAGGATTTTGTCAAAATCTGGTTCCTAGCCGGAAGTGGTGGCGCACGCCTTTACTTCCAGCACTTGGGAGGCAGAGGCAAGCGGATTTCTGAGTTTGAGGCCAGCCTGGTCTACAAAGTGAGTTCCACAACAGCCAAGGCTACAGAGAAACCATGTCTCGAAAAACCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATCTGGTTCCTTAGCCAGTGACTGGGTATGCTGCCCGAGTATGGTTTTTGTTTATTCTTTATGTACCTAATGAGGAAGAAAGTCAGTTCAAACATGGACAAACAACAAGAAATTATGCTGTGGAAAAGGAGATGCTGCAGAGACAGCAAGATCAATCAGTGAGCAGGAGTGAGAGGGGTGGGGTGAACAAGGGGAGCATGGGAGTCTTAGGGATAAGAAACTACCGAGAGGAGGCTTAAATAATGGACACATCATTATACACTTGTCAAGCCCCACAGAATGTACACCAGCAGGAGTGGGACAGCATGCAAGCTATGGACTTTAACACCAGTGCCTCAGTCCCAGCAAGTGCAAGGCCTTAGTGATGGGGGAAACCAGGGAGTGGCAGAGTCTCTACAGGAAAGTCTGCACTTTCCACTCTGCTTTCCTGTAAGCCTAAAACAGCTCTTAAAGATTAATTAGTTAAACAAACAAGCAAACAAAACCCTGCAACATTCATATGAAAACAACTGTCCGTTCTTCACCCGTCTTTCACGCAGAACACACATGCACGCATGCACACGCCTGAACATAGCTTCTACTACCCAGACTTGATATATCTTCCCTGAGTAAGCTATCTTCCATGATATTAAGGAGAATGTGCCCAAGAGAGCACACAATTAGTCTAAAAGGTCCTACTTATCTCAGATATGTTATCTTGTATCAGTAAGCATCTAGAGAGATTCCAGGATCCAGGAACACGAATGTCATGACCTCATGGCAGTCCTGTTACGAGCAGCCTGCATCCCTCCCCAAAATATATCTGCTGATTCTCCCATGACTTCTTTTTCTTTTCTTTTTTTTAAAATATTTTTATTATGTATTTTCTTCAATTACATTTCCAATGCTATCCCAAAAGTCCCCCATACCCTCCCCCCCACTTCCCTACCCACCGATTCCCATTTTTTTGGCCCTGGTGTTCCCCTGTGCTGGGGCATATAAAGTTTGTGTGTCCAATGGGCCTCTCTTTCCAGTGATGGCCGACTAGGCCATCTTTTGATACATATGCAGCTACAGTCAAGAGCTCCGGGGTACTGGTTAGTCCATAATGTTGTTCCACCTATAGGGTTGCAGATCCCTAAAGGGTACTTTCTCTAGCTCCTCCATTGGGAGCCCTGTGATACATCCATTAGCTGACTGTGAGCATCCACTTCTGTGTTTGCCAGGCCCCGGCATAGTCTCACAAGAGACAGCTATATGGATCTATGCTGTACCAAACAAGCAGGATCTCACTAAGTCTGAAACTGGATAAACTATCTACTGCTGCTCAACCTATCCCAGGCCCAGGCCTCCAGTGGAGTATGCCTGATGCCCTGGCATGTCACATCTGGGACACTGGGGTCATCCAGGCCTCTGACAACCTGGATCAACATGACATTTATACACACTGATGATTTCTCTCATTCAATTCTTCTGCTCCCCAATGAGACAAGGACTAATTACCCCCAACTTGCTGATGAAAAGACTAGCAGTGAATTGTTTTCCAAGGCATTTTAGTTTCATTTCCTATTGCATGATAAAATTACCCTAACACAGCAAACTAGGGCAAAGGGGGTTTATCTGGGTCACAGTTCCAGGTCACAGTCCACCACTGCAGAGAAGTCACAGTGGTGGGAGCTTGAGAGAACTGGTGACATTATATCCACAGCCAAGATCAGAAAGTAATGAATTAATGCATGGTCTCCATTGCTGAGTCTAGATTGACAGTTCAAACTCACCATCAGAATAGGGCTGCTGTAAAATGTAACCATAGGCTAGGTACAAAATTTTATATGTGATTCTTGAATCATAAATCTAAAAGCAGTGTCAGCGAGGATGTTTCTGAAGGCTCTGGGGCAGCCTCCTTGCCTCTTGCAGCTGCTAGTGACTCTGGTATTCCTGGCTGTAGCTGCAAACTACAGTTTATGTCTGTGTCTGTGTCTGTGTGTCTGTGTGTCTGTGTGTCTGTGTATCTGTGTGTCTATGTCTGTCTCTCCCTCTCTCTTTCTCTCTTTCTCACCCTCCCTCTCTCCTTCCACCTTTTGTTCTTATACAGACACCTGTGAGTTTAAAAACCTCATCTCAAGACCCTTAATGACATCTACGAAGATCCTTTTCTAAAGAAAGTCACAATCACAGACAGGTACCTAGGGCTTAAGGACTTAGCCATGTTTGGAGTGGATACAATCTTTCCTGCCTCTGGCTGGCAGGAAAAAAAGATCCTTATCTGAGATCACAGAACTAGAATAAGACAAAACCAGAGCTCGAACCCACAGCTGTCTAACTCTAGGCCTCACTGTAGACCAAGCACCTTGATGCACTGTTTTACGTGTGCACTCCCAGTGGATGCTGGGAGAACCAAATTGACCACTGTAGTTGAACCCTCCCTCACCGAGCAGCTCTCTTTGCCTCCTTGTTTTTGTCTGGCCAGCTCAGGAGAACAGTGATCATAAGGACAATAAAGAAGCTAGGACACAGAGGCAGCTGGGATGTGGGGCTGTTGTTATGAGAATGGCAGCCTAGCCGGCTCTATTTGATAGTGGTTCTGTGTTGTTTTGGCCAAAGACTTAGGACATAGCTGCCAGGGAGGCCCAGAGGCCATTTGCTGCCCTCTTGCAAGCTAATGTTCAGGAATTAGCTCTCAATTCCAAAGTCATTAGGGGCGGAACAGGGAACCCAGCAGGAAGCTGGAAGACTTGGTGCCTCTCTAATGAATGCCATCTCCGGAGCCTCAGATCCCTGATGCTCTGAGTAGTGCCAGCCAGTGTTGGCTGTGTAAGAAGAACAGAAATTTTAATGTGGATTTTTTTTCAGTTTTTAAATGATGGTAATCACTCAGAGGAGAAGGCAAAAACTCTTTAAACATCAGGATAAGCAAACAAAATAGTTGTGGAGCTGCCCAAGGATCATGTGTTTCTCCCCAAGTGCCAAGAGCCAGGCAGTGGGCCCATCTGAGAGGTCGTTCCAAAACAGTCTCTGTCCCTCTAGTGCTGCTGCAACAGAATCCTCAGTAACTGAACAGAAATTTAATTCTCATACTCTAGAAGCCAAGGTCAGGATGCCAGCTTGTGGTACATGCCTTCTTGGTGTGTCATGACAGGCTGAGTGAGCGAAAATGAGGGAAAGGGAGAGAGAGAGAGAGAGAGAGGGAGAGGGAGAGGGAGAGGGAGAGGGAGAGGGAGAGGGAGAGGGAGAGGGAGAGGGAGAGGGAGAGGGAGAGGGAGAGGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAACCTCGATGCCAGTTTCAAGAGTAGAGAGCACTAGGTGAGGGCAGGAAGGAGTGGGTCAGAGAACAAGTATCCAGAACCACACGGAGTGAGTGCCCTCATGGTGGGGGGGGGGGGATAACCCACAGCCCCTAGACCTCTGGAGTTGACAGAAATCAAGAGGGCTGTGACAAGACCAGACTCTTCTGTATGGTCTTGGAGTTTGCTGGGTATTGCAGCTATCAAAGTTCAGGTTCATTGGCTGGAAGCTTAGGAGCTTGCTTTTCTAAGCAGCAAACAGAACTTTATCCTCTTGGGGTAGGATTCTAGGATGCTGACAAGCATTTTACTCAGAACGTATTTTGGAAAAGAGTCTAGGAGACAGGAAGATCTCGCAGCAGGCATTAAGCCTGTCTGATGGCTCCTCTGCTCCTGGATAGATCTGCTTTTCCTGGCTCCGAGTTCCTTCCTCACTGGAGGCTGCTCAGGAGCAGAGGCTGTGGAGATGCCGCCATGGCAGCTCACTTGAGCTGTGTTTGTATTTTAGCCTGCTCTTCCACGGCTCATGAGCTCTTGAGCACAAGGCAATAGGTTCCATTTCCTAGTGGCTTTCTGTCATCTTTCCTATGACCAAATCAGAGTTCGGCCTAAATATGGGAACTGTCAACCATGCAGAGTGCTTATCCACGGAGGGCTAGAGATCTGGTTATACAAGCCTGCTGTCTCGTGAGAGAAGGTTGCATACATAATGACCCACAACCAAGGGGCTGTAAGGCAAGTCCGAAAAAGGCAAGGAAGACTGGTCAAAGTTGGGGAGTAAGACAAAATGTGTGTGCATTTATGCGCATGCACATGCCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTACTAGGGATTTAGCACAGCCTTTGCACAGGACAAATAAGTATTCTACCACTGAACTGTAATATTCAATGAATTTCAGCACAAAATTGCTTAGCAAAAATTGACTAACTTCCTACTCTGACCAAATCCCTCCTCCACTTCTTGGCAACTTTACCAG
Seq C2 exon
AATAACGGCGGCTGCAGTCCATTTGCCTTCTGCAATCACACAGAACAAGATCAAAGGACATGTACCTGCAAGCCAGACTACACGGGTGATGGAATCGTCTGCCGTGGCAGCATCCATTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035459-Stab2:NM_138673:44
Average complexity
IR-C
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(40.5=62.5),PF129472=EGF_3=PU(5.4=8.3)

							
A:
NA

							
C2:
PF129472=EGF_3=PD(89.2=82.5)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000048309





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000125263
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr12:103717842-103724974 
ALTERNATIVE
HsaINT0160061
(STAB2)
Human
(hg19)
chr12:104111620-104118752 
ALTERNATIVE
HsaINT0160061
(STAB2)
Rat
(rn6)
chr7:27407103-27411281 
LOW PSI
RnoINT0144370
(Stab2)
Cow
(bosTau6)
chr5:67732228-67734072 
LOW PSI
BtaINT0141858
(STAB2)
Chicken
(galGal4)
chr1:54946323-54948330 
LOW PSI
GgaINT0112649
(STAB2)
Chicken
(galGal3)
chr1:56840408-56842415 
LOW PSI
GgaINT0112649
(STAB2)
Zebrafish
(danRer10)
No conservation detected
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"