Special

MmuINT0150791 @ mm9

Intron Retention

Gene
ENSMUSG00000037617 | Spag1
Description
sperm associated antigen 1 [Source:MGI Symbol;Acc:MGI:1349387]
Coordinates
chr15:36153864-36157017:+
Coord C1 exon
chr15:36153864-36153996
Coord A exon
chr15:36153997-36156890
Coord C2 exon
chr15:36156891-36157017
Length
2894 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGT
5' ss Score
3.1
3' ss Seq
CCTTGCATTATGTGTGCCAGGGC
3' ss Score
5.88
Exon sequences
Seq C1 exon
ATGAAAAAATGTTTCAAGCCCTCAAGGAAGAAGGAAATCAACTTGTAAAGGACAAAAATTATAAAGATGCCATTAGTAAATACAATGAATGCTTAAAGATTAACAGCAAGGCATGTGCCATCTATACAAACAG
Seq A exon
GCAAGTTCTTTGTGATTTATGTAGGTCTTTGAATAGTGTTGATTATTTTATTTATTCATTTTATGTGCTTTGGTGTTGAGGGTGTTGGATCCCCTGGAACTAGCATTATAGATAGACAGGTAGGAGCTGCCATGTGGGTGCTGGGAATAGAACCCACATCCTCTGGAAAAACAGCCTGAGCTCTTAACCATTGAGCCATCTCTCCCGCCCAGTTTTGATTATTTTAAAATAACTTTTGAGAAGTTAGCTTACTACAATTCCTTAATTCCATGTACTGCTTCTAGGAATCAGTATGCAAGCTGTCCTGGGTGTCTCTGAAAGAGCTGGACTACATAGAGTTAGGAGAGGGACTGGAAGGATGAAGGTCTGATGCCCTGGTCCCATGAGCATCTTTGGTAACTAAGCTGGTCCTGCTCTGGCCCTGCACGGTCTGCCTGGCCAGGCTGCAGCAAGCTGGGTCTAAGCTCTGCCCAGTGTAGAAGCTGGTGCAGGGTTGAGGGAGGTGACCAGTATCATTCAAAAGATGTCTTATGGAGCTGTGTCCTTTTGCTTATGAAGTACTAAAGGCCCGTCTTTTTTTCTTTTTAACAGTGCATAGTAGAAACTGGCAGGCTGCTCTAGAATGCAGCCTGTACCATCTTTACCACTTCTGATTCTTTGGGGATTTGGTGGAAATAGGTAGGGTATGTGATAACAGAAAGAATGAAAGATCAGTTTCAGGCATTTTTCTAGTTGTATCATACAATCTTTAAAGGGTTTTTTTTTTCTTTTTTGAGAATTTCAGACATGTGTACTGTATTTATATAATTTCTACCCCTCCCTCTTTTTAAAAAAATATGTGTTTTTTCCCTGCATGGATGTATGTGTACGCATGGTACCTACTGAGGTCAGAGGAGAGTGTTGGATCCCAGCTACCAAGCGAATGCTGGAAACCTGACCCAGTGCCCTGAAAGAGCATCAAATGCTTGAAATTGCTGAGTTCTGTCCAACCCCTCAGATAAATCCCTGACTGGCCTCTTACTGTGGCTTTGTACACTTTTCCCACTTGTGGCCACTGCTGGCTGAACATTGTCACTAAATCCAAGAGTATTCCTCCTCCTGTCTCATCAGTGGCCAGAAATGGCTCATTGGTTTCTGTGAAGGCCTTGCTGCCCTGGCTGTAGTGGCCTGGAGCTCAATGCCTGGGCCTCCTCTCTGCAGGCTTCTCATTGTCTGGTATCTTGCCTTGGAGGGCCTGCTTGAGCGCCAGACCAGCTCACCTCCCTCGAGTCTGGCTCCACTTACCTCCTCTCTTTGTTCCTCCAGGCTCTGCTTTCTGAACCACGGACTTTCCTTCCTCATTGGAGAAGCACCCTTGGCCTTCCTTTTTCAACCTAGAGTGTGCTCGCCTCTCAGTACCCTCAGAGTGACTGGCTTACCACCCCCAGCTCTCTGCACCCAATACCTGCCTTAGACCACTGTTTTCTACTGCCTTCTCTTTCCCCTTGTCCCACTCTCCCAGTTGTAGCTAGAGTGAGCATGTCACCCAAGGGAACAAGGCCCTTTGTGACCTGGCCTGGATCCACCCTTCCATTGCAGCCAGGCACTGCTTTTCCAGGTTCATCAAGAACACCATGCTCTGCCCTGGGAAGGCTATGCCCAGGCTGTGTCCTTGGGCTCCCTCTGACCCTCTTCTCTCTCCCTTAACTCTAAGCCTTGGCAAGATCATTCTCCTTCATACGCCAATATGCCTGCTTTTAACTTGACGAACTTACACCCCACAACGTCTCCTGGCTGCTCTGCCACTTGCTTTTCCCCACAAGGTCTTGGGCCTTGGCTGTGAGCTTCCAGACCCACTTTACAGATATCATTAGAGAGGCTCATTCAGTTCCCTGTCTCCACCCTGTTGCATCTTGTTTTGGATCAGGCTATATTTTGTTTGCAGTGGGCTCCCCAGTGATGTAATTTTATCCCCTGTGAGAGTGAGCACTGTGGCTGGCTGCAGGTGTAAGTGCTAGTTGAAGCAGCTGTAGCTTAAGGCAGTCTTAGTGAGCTGTAGCTTAAGGCAGTCTTAGTGAGCTGTAGCTTAAGGCAGTCTTAGTGAGCTGTAGCTTAAGGCAGTCTTAGTGAGCTGTAGCTTAAGGCAGTCTTTCTTACTGAGCTGGGTTGATCCTTACTAGCTACTTCTTCCTTTTAAAAATAGATTTAAAAAAAACTATAGAAATTATTTTAGCTTTTTAAGATTTTTTAACATTTTTTTATTAGATGTTTTCTTCATTTAGATTTCAAATGCTACCCCCTTTCCTAGTTTCCTCTCTGAAAATCCCCTGTACCCTCCCTCTTCCCCCTGCTCCCCAACTCACACTCCAGCTTCCTGGCCCTGGCATTCCCCATACTGGGGCCTAGAATCTTCGCAAGACCAAGGGGGCTCTCTTCCCAGTGATGGCCAACTAGGTCATCTTCTGCTACATATGCAGCTAGAGACACGAGCTCTGGGGCTACTGGTTGGTTCATATTGTTGTTAATAACAAGATTTTGCTGACAGGACCCTGATATAGGGTCCCCAGTGAAGGAGCTAGAGAAAGTACCCAAGGAGCTTTTTAAGATTTTTAATAGTGTGCATGTTTGTGGGTGTGTAGACATGTGCACATAGGTGTGTGGGCATGGGTGTGCAGGCCTGTGCACATGGGTGTGCACGTGTGTGGGTGTGTGCACCTGGGTACAGAGGTGAGAAGCAGGTGTCAGATCCCCTACAGCAGCCAGTTATAAGCTACCCTATGTGGACACTGGGAACTGAGCTCAGGTCCTCTGCAAGGGCCGCAAGTGCTTTTAAACACAGCTAACCTCCCCAGCCCCGCTAGCTGTCGAAATACACTGATCAGCTTCCTCTCCTTTCCTTGCATTATGTGTGCCAG
Seq C2 exon
GGCTCTCTGTTACCTGAAGCTGGGCCAGTTTGAAGAGGCAAAGCTGGACTGTGAGCAGGCGCTTCAGATAGACGGCGAGAATGTGAAAGCCAGCCACAGACTAGCGCTCGCCCAGAAAGGACTCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037617-Spag1:NM_012031:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.022 A=NA C2=0.209
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF134141=TPR_11=PU(61.8=93.3)

							
A:
NA

							
C2:
PF134141=TPR_11=PD(36.8=58.1)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000047335





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000047335f3702A, ENSMUSP00000132233
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr8:100231289-100233410 
ALTERNATIVE
HsaINT0157141
(SPAG1)
Human
(hg19)
chr8:101243517-101245638 
ALTERNATIVE
HsaINT0157141
(SPAG1)
Rat
(rn6)
chr7:75046303-75048365 
ALTERNATIVE
RnoINT0141950
(Spag1)
Cow
(bosTau6)
chr14:66328327-66330872 
BtaINT0139370
(SPAG1)
Chicken
(galGal4)
chr2:128202868-128203794 
ALTERNATIVE
GgaINT0096251
(SPAG1)
Chicken
(galGal3)
chr2:134069611-134070989 
GgaINT0096251
(SPAG1)
Zebrafish
(danRer10)
chr6:52227615-52227732 
LOW PSI
DreINT0166351
(tomm34)
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"