Special

MmuINT0140975 @ mm9

Intron Retention

Gene
ENSMUSG00000026580 | Selp
Description
selectin, platelet [Source:MGI Symbol;Acc:MGI:98280]
Coordinates
chr1:166063998-166067420:+
Coord C1 exon
chr1:166063998-166064183
Coord A exon
chr1:166064184-166067234
Coord C2 exon
chr1:166067235-166067420
Length
3051 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CTCTGTCCTCCTCACTACAGCTG
3' ss Score
9.79
Exon sequences
Seq C1 exon
CGTTGCAATGTCCAGAGTTTCCGGTTCCCAGTAAAGCCCAGGTGAACTGCTCGGATCCCTTCGGTACCTTGACGTACCAGTCAGTCTGCAGCTTTTCCTGTGATGAAGGCTCGCTCTTGGTGGGAGCAAGTGTGATAAGATGCCTGGCTACTGGACACTGGAATGGGGCTCCTCCCGAATGTCAAG
Seq A exon
GTAAGGATGGATTTCCCCCCATTTTTCTTAGCAGTAAGTTGAAGGCAATATTCTTAAAGGCTATATCTGAGGTGGTAACTGGATAAGGTGTACCTTGAGAAATTAGCGAGTGCTGTCTGTCCCTAACTCCTTCATCCTCTACCCCCAAGGATTCCAGATACAAATGTCGTCAGAGACTAAGCAAACATCATGAGTGTCAGGATATTTAGCAATGATAACAATGTGGTGACCTTTGCGGTGTCTTTATCAGAATCTACATCAGGACTGGCAGGCTCCTATCACAGTGGTACTCACTAAGCACGGGGTCCAGAAAGAGGACGGGAAAGAAAACTTAACTCTGAGTGTTGGCTCCAAGACTGATCTGACACTTTCTTGGTAGGGGTCATGGCATGTCCGGGAGGAATGAGAAAGGCAGAATTACAGAATCTAGAAGTAAGCATTCTCTGTTTAACACTGGAGAAACATAGTTAGGCTATAGTGTGGAGCACTGGGGAGAATCCGTGCCATGAACTGGAGATTAAAGCATTCTCGGAAGAAAGCAAAGCATAGCCTCATTAGGACAATTTATATCTATCTGTGTTAGACTCGGTGTTAAGAAGCCAGCATGTCCTGTGAGCACCATAACATCCTGTGTGAAGCAGAGCTGTTCTAGTCACCTGACTTTATAGTGTGTGATTTTCATATTTTCCCATTTCTTTCTCTTTCAATGTACCCAAAACTTTAGCCAAATTTATGACAAACACTTTTAACAAAACAAGATTTATATTTGTAAAATCTACAGATATATAGGAAAATAGAGACATTAAAATAGTCTCGTAAATATCAACCATCCAAAGGAAATATTTCTAAGTGCTTCTGATATGCTCTCATGCAATTTTTGTAATAGTATTTTATTGTGTATATTTGATTTTAACAATATACTTAATATGTGCAATGTGAAATATTTCTGTATCACTTAACTTAGTATGGGCTTTCAAATATATGAGTAAAAGCAAGCACGTTTTTCATGAAAAAGAAACCACTTGCTATTCAGGTCCCACAAGTGTTCTCACACACACACACACACACACACACACACACACACACACCATTATAAAGCAAACAATTCATGTATGAATAACTAATTAATTAATTAACAGCATAATACGATATCCTTCGTTCAAGGCATCAGAACCTAAGTCAAGTTCTGGAGTTGGGGTTGGGATTGAGGAACTGGGTCTGGATAGAACAGAGTGAGGCTCTGGGCTTGTCCCTTGCTCTTATCCTCACGACACTGAAGTCTATACAGCTTTGAGGAAGAGCTCCAAAATCCTCAGCAGGATTATCAGGAGGATCAGACCCTTCCAGGAAAGCTACTCATTGCTCCACAGTCCTGCCTGTGGGTGTTCACTGCCAGGGCCTGCCACTCACCACAGCTTCCTGTGACCTTCCAGTTCCCTTCTGCTTTTAGCCCTTTGTTTACTCTGAGGGAACTTTCTCCTCTTCTTACTGGGTGTGCATCAAGTGAAATACCCACATGCGGTTGAGGCAGGAAGGTACCACGAGGCCTGAAATCCACAAGCTATTGTGACACTTCCGAGGGAGAGAGCGTTATCAGATCATTTTCCTTGTCACCGTCCCCACAGCCCTCTACACTCATCCTTGCAAAGTCACTGGAGAGCTGGAAATGACTCTGCCATGACTTCACCAAAGCAAGGACCCACACCCTTTTCCCCTCTGCATTTCTGGCTTACAGCCTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTCTCTCTCTCTACACACACACACACACACACACACACACTGAACACAGGAAGACTTTGCAAGTGGCAGACTGTATCTCAGTCTCTGTATAAGTTGATTAGAGTGAGAGGTGTACTGCCAGGGACGGTATGGAATGAAGGGACAAGAAAGGTGCAGACAGTACCTGGAAACAACAAGGACTGCTGCCCCATTTCCTCTGATTTAAAGCCATATACTGCATAACCAAGACAAGGAGCAGAAGTCCCCGAGACCGTGTTTACACTTAGCCCTTCCCTTCCGAGTGTCAGCATGATTCATCTGGGCTTCATTGCGTCAAGTGACATACCCACATGTGGTTAAGGCAGGAAGGTACCACGAGCTCCCTCGAGAGAGGTCCACCTTGACAGCTACTGACATTGGCACCGAGAATCTGTTCGCTCTCGATCTGACTAAGTCGTTAAGATATCAAGATTCAGAGAGGTTAAGTGGCTTGTCCAAAGTCATAAAGTGTCAGTCCCAATCCAAGCCAGTCTCCAAGCACCTCAGACTTGTGTTTATATATGCTGCCAAATAACTGGGAGACCTGATTTCATTATCTTGGCGGGTCATTTATGCCTGGTCCTGCAGGTTGAGACTTCTGGGAAGTGGTGAAAATTGTCATTTACAGACAACCAATGAAATATGTATCCACTTTATTCCCTTTTACATTTAATCTTTGAGTGTGGCCTAAGTGTGACTTGCTATATAAATAAAAAGTACTGTGAGGCAAGAGTCACAGATTTTCATTGAAAATAAAGCATCCACGGCTGCAAAGGGGTCACCGTGCATAGTATAAGCTAAGACGTAGACCCAGATTCTCTCACCACTGGCTGGGAAAGAGAAAGAAATCACCCCCACTTTCACCTCTAAGTTCTTGGCATTGTTTGCTGGAAACATCATCCGGTTTGTTTCTCAAGAAGACATCAAGGGGGCGACTTTCCCTGAGGTCTAGGGCATTCAACGTGAAGCATGCCACTATCTCTCTAAAGGGTGCCAAGTCCCTTTTACAATCACTTCTGAAACCCTGAGTGGGTGAGATCTCAGAATGACAGTCAGTGGTAAGCCATAGCTGTCACCCACCTCCCTGCTCCCTGATGCCTTAAAGATAAAAAGCCAGAAAATGACCACCTTTAGCTAAATGTAGAGAAAGACAGAGAGCAGTCACACAGGGGCCGGGAGTGGGGGGGGTTTGAAAATGCCAAGCTCTAACATAAGCCCCTCTCCCTCTGTCCTCCTCACTACAG
Seq C2 exon
CTGTGTCCTGTGCCCCTATGCTCAGTCCTGAGAATGGATCCATGACCTGCGTTCAGCCTCTTGGGAATTCCACCTACAAATCCACATGCCAGTTCATGTGCGATGAAGGATTTTATCTATCTGGACCGGAAAGACTGGATTGTTCTCCATCTGGACACTGGACAGGCACCCCTCCCACGTGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026580-Selp:NM_011347:7
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:
PF0008415=Sushi=WD(100=92.1)

							
A:
NA

							
C2:
PF0008415=Sushi=WD(100=92.1)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000123924





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000083208
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr1:169603212-169606948 
LOW PSI
HsaINT0147183
(SELP)
Human
(hg19)
chr1:169572450-169576186 
LOW PSI
HsaINT0147183
(SELP)
Rat
(rn6)
chr13:82450114-82453105 
LOW PSI
RnoINT0132789
(Selp)
Cow
(bosTau6)
chr16:38065578-38068733 
LOW PSI
BtaINT0130662
(SELP)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr8:5316221-5316901 
ALTERNATIVE
GgaINT0038644
(SELE)
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"