Special

MmuINT0150788 @ mm9

Intron Retention

Gene
ENSMUSG00000037617 | Spag1
Description
sperm associated antigen 1 [Source:MGI Symbol;Acc:MGI:1349387]
Coordinates
chr15:36140855-36146074:+
Coord C1 exon
chr15:36140855-36140954
Coord A exon
chr15:36140955-36145921
Coord C2 exon
chr15:36145922-36146074
Length
4967 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
GTACTGTCTTGTCCTCTTAGGGC
3' ss Score
10.41
Exon sequences
Seq C1 exon
GAAGTGCAAATGCGGATGAGCTAAGCATCTTGTATTCAAATAGAGCGGCATGCTACCTCAAAGAAGGGAACTGCAGGGACTGCATCCAGGATTGTAACAG
Seq A exon
GTAAACCTGCTCCAGGTTTGTCAAGAGAAGCTTGTAATGCCAATGTGAAGAAGGCAATGTTTAGTATCCCAAGTTTTCTATGAAAGAGCCTAGTTTCCTAAAACTGCTCATAAGTTGTTGTGACAAGAATGTAAAAAATCCCCACATCTATACACACACACACACACACACACACACAAAGTTGAAAAATTATACAAACCTTTTCTCCCCTGCCTACCGCAATCTATGGATTTTCCCTCTCTCTGGATTACGGGAGGTAACTTGCTCCGGAACACCTGGCCACCAGGGTAATTTCTACTGGATTTTGCTCAGATTGTCTCCAGCAAGCATTCAGTGACTGTGTATTGCCCTCCAGATCAAGTTCCTTGGCACCACCTGCTCCCCAAACTGGACCACTTCCTTCCTCTCACTGCCCCGTGTTCGAGGCCTTTACCCACCTTGTTCTAGATAAGGGTTGTACTCTCAGCTCTGCCCAGCTGCTAGCCTACGTGGTAGGTTTCTCCTGGTGCCCTGGGCATCAAAGGCTCTAACACTGGTCCTGGTCCTGTTGCACCTGTAGACTCCCAGCCCATTCGGTGTAGTGGATTTAGTGTCTGGGCCCTCTGCGGCATCTCACTCTAGACGGTACTCAGTAACCTGCAAGGCTGGATGAATATAGGCACACCAATCAAACGTTTTGTTTTCTTTTACCATTAAGTGATAAACCTTATGGCAAGAAGTCACTAGTTAGCACATCTGAAAACAATAAGAAGTGATGTTCTAGACTGACTGACACAGGCCTGGTTTCCTCCTGCTGTTTTATATAGTTAGAGTGCGCCACGCCTTTCACTCTCAGAAGTCTGGACAATAAATCTGTGAGGCCTGTTTATAAGGCAAACAGTTTCCTTCATTGACTTGGTCAGCTTGTTGATGTGGATTAAGCTTGATGGTGTCGGTGCTTCCAGTGTCTGAAAAGGCTTTACATTGCATGGTGGTTTTGGTTTTGCCAGTATAGATTGGAGTTTAATAGACTAGCGTTTATCTTTTGGTTTGGCCTGTCTCCATCCACAGTCATGCTGGTTCCCATTGGCTAACTGCTTTGTTTTTAGGAGTTTGTGAGTTAATGGACATCAGGTGGGCAGCTTGCAGTCTGTCGTGGCATAAGTATACTACTGTGAACACAATCAGATGGCCCGAATCTTAGCTCATTCCCCACAGAACCTGTCAATGTTTGCCATTGCTGTGGCTCAGAGGGCCGCTGAGTGTGGGGCAGGTGTGCTGTGACTGGCAGTGAGCATCCTCTCACCTAAGCACTTCTTTCTAATGTCCTTCCTCAGAGGAAACCCACATGGGACTCCAGGCCTGCGCCCTGGGGCTGGAGGAGGAAGATGGTCCTGGAGGAGAGCAGAGGGCCTGCTGGGAAGGGAGGAGGGCCTTAGCTTAGGAGCGTGACCTCAGACCTGTGTTCTTAGCCCAGGAATGTGGCTCTGCTAGTCAAGGCTGACCTCTGTGGAGGCTGACCTACTTAGCTGTTTTCTGTGATACCTGGTGAGCGTCACAGCAGGACAAGCTGGAGATGGTATCTAGTAGGATGCTTGTATTCTCAGATTTTTTTCATTTATTTATTTATTTTGTTCATTCATTCATTTAATTTACATCATCCCTCCTCCAAGTCCTCCTCACACAGCCTCCTCCCCTCTCCCCCTACCCCCTTCTCTGAGAAGGGGGAGGTCCCCCCTGGGTATCAACCCACTCTGGTGCCTCAAGTCACCACAGGACTATGTAATCTTTTCCCACTGAAGCCAGATAAGCCAGCCCAGTTAGGGGAGCAGGCTCCACAGGCAGGCAACAGACTTAGGGATGGTCCCCTCTCCAGTTGTTGGGGAACCTGTATGAAGACCAGGCTGCACATCTCTGTGTGTGTGTGTGTGGGGGGGGGGTGGCTAGTTCTAGCCCTTGTATGTTCTTGGGTTGGTGGTTCAGTCTCTGGGAACCCTCAACGGTTCAGGTTAGTTGAGTCTGCTGGTCTTCCAGTGGAGTCCCTGTCCTCTCCAGGTTTAATGGGAAAGAAGACATGAGGTGCCTTCAGGAGCATGCTCAACTATGGATATATTTGAATCTACATGAACAAGGAATAGTTTATTAGTAAAATGTGTAACCTTCACTTCTAGCTCCAAAGACTGCATGCATTTTCAAAGAGCCTTCTTATTTAGTTTTCAGAAATAATCTTTGCATTCTGAGGAGTTCCATAGCTCTTTTTAACAGATAATTGGGATTATAAATCAAACTTTGGAAGGGAAGCCAGGAGTCATGTCTCACACTTGTAATCCCAGCAATTTGGAGATGGAGGCAGTGGGATTAGGAGCTGAAGGTTATCCTAAGCTTCAGAGTTTGAGGCCAGCATGGGCTCCATTAAATTCTGACTCAGAAAAACCAAACCAGACATTTTAAACTAGGGAAACCTTTTTACCTGTGAAGATATTGTTTATAGTATTTAATTTTTTAAGGAACTTAAACCATGTGTGTGTATGTGTGTGCCACATGTTTGTGCATGAGTATGCATGTGTGTGTCACATGTGTGTGCATGTGTAGCACATGTGAATGCCTGAAGATCTGGGGTTATGGGTGGTTGTGAGTTGCCTTCCGTGGGTGCTGGAATCAGGCCCAGGTCCTAACAGCTAAGCCATCTCTCCAGTCCAAGATCTGAAAACAATGTGTTTGTGTATGTGTGTGTCTGTGTATGGATGTCTAGTACCTAAGGAGGCCAGAAGAAGGTATCAGACCCCCTGGAGCTGGGGTAACAGGCGGTTGTGAAGCCTTCCTATGTGGGTGCTAAGAACTCTGGTCCTCTACAAGAACAGCAGTGGGTTTAGCCGCTGACTGACTCTCCAGTCTGAAGATAAACTTTTTTGTATCTCTGGAGAGGCAGTGTTTTCCAGAGGTTGTTTGCGCAATCACTCTTGGGAAGTTTGGGGGTATGCATGAGGCTCTGGGCCCCTCGTTCCTCAGCTTCTCCACATTTTAGTTTGCAGGCTCCATGTGAGATAAAGAAGCTATCATGCCTAAGCAAAACTGGGAGAAACAATGTTTTAAAAAGTGGAGATTTTTGCATAATTGTTTATCAGCCAAAAGAAAACAAACAAATAACAACAAGAAACACCCCAAACCACATCATACTTCTGTTGTCAGAAGAACTCTTGAAGTTGTTGGAAACATGGGCGCTCACAAGTGCACGCACACACACGTACGGACACACACACACACACACGTACGGACACACACGTACGGACACACACACGTACGGACACACACACACACACACACACACGTACGGACACACACACACACACACACGTACGGACACACACACACACACACACACGTACGGACACACACGTACGGACACACACACACACACGTACGGACACACACGTACGGACACACACACACACACACACACACACACACACACACACACACGTACGGACACACACACGCGTACGGACACACACACGTACGGACACACACACACACACACACACACACACACACACACGTACGGACAGCTTCCTATTTAGAGTATCTAGAGAGGCTAAAGTTGCCTAGTCATTCTCCGCCTCTGTGTGTTTTTGCCAACTTCTGACAGACTTGCCCACAGGAAACGCCTGAGGGTCACAGCCGGCTTCCTGGTGAGCTCTTTGATGCCCAACACCTGTCTGTGGTTGTGGTTGGAGACTGTTTTCTTCAATGGCATTTCCATTCGCAGGCTCACACTCATTTTCAAGATGTAGTCAAAGAATGAAAACCCTAACCCTTCATTTCCTATGTTAGGAAGTACTAAGAGTTTTGTGTCCCATTTTGTCAATTTAGATTCCAAGCTTGGGCCATCTTGATTGGCCCTGTGGTATCTTGAGCAATGAAAGCAGCCTGGGATGGAGGTGATGCAGGTGTGGCGGGGAACACCTCCACACTCTCTGGCCTCGCAGATAAAATTTATATGTAGTGATACTGAAAGTGCAAGATGAAAACTCATGACTCATAAACAGTTGTATGCTTAGTCCCAGGTTCTCTTCTGGTTTGTTGCTGATACCCTTTTTATAATCAATAGAAATGAACCATAGATAGTGTTAGAAAGTTGATAAAAAAAACCATGCAAGTTCTTGTGGTTTAGTAGTAAGGCACCTTGTTAAATATATGGATACGATTAAGAATGTGTGTGTATGTGTGTGGGCTGGAGAGATGGCTCAGTGGATAAGAGCACTGACTGCTCTTCCAAAGGTCCTGAGTTCAAATCCCAGCAACCACGTGATGGCTCACAACCACCCACAATGAGATCTGATGCCCTCTTTTGGTGTGTCTAAAGACAGCTACAGTGTACTTACATATAACAATAAATAAATCTTTAAAAAAAAAAAGAATGTGTGTGTGTTATGTGTGTGTCTGTGTCTCTGTGCGTGTGTTGTGTATGTGTGTGTTGCGTGTGTGTCTGTGTCTCTGTGTGTGTTATGTGTGTGTGTCTGTGTGTGTAGGCCAGCGCTCAGCATCTTCCACAGCCACTCCCCATTTTATTGTTTAAGACTAAGACATTCACTGACCTCGGAACTGCCAGCTTAAGGACCCCCTCAGACTGGCCAGTGAGCCCCAGCAAATCTGTCTCCACCTCTTAAGCTCGGCATAGCAGGCAGATATGTGTGCTTGCTTTTATGTGGTGCAGGGAGCCTCAGGTCCATTTCCTTAGCTGTGAGACTTTTATTTCTAAACTCACACCTCATTGTGGCCCGAAGACAGTAGAATGCTTTCTAGTCGGTGGGTTCAAGGACAATATGATAGCTGTTTAACTTTGGGTTTGTCTTTCTGATAGATTGCCAGGACCCCAGGGTGAAATATCAGGTGTGATGCATAGGGGTCCAGCACTGCAGTCTGCATTGCTAAATACAAATTAACGGATCCTTCTCAGGTAAATGACGCGTACTGTCTTGTCCTCTTAG
Seq C2 exon
GGCTCTGGAACTTCATCCGTTCTCAGTGAAGCCTCTTCTGCGGCGAGCAATGGCCTATGAGACCTTAGAGCAATACAGGAACGCATATGTGGACTATAAAACAGTGCTGCAGATAGATTGTGGGATCCAGCTGGCGAGCGACAGTGCTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037617-Spag1:NM_012031:12
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:
PF134141=TPR_11=FE(43.4=100)

							
A:
NA

							
C2:
PF134141=TPR_11=PD(7.9=11.5),PF0051523=TPR_1=WD(100=59.6)

						

					

				








    
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)
chr8:100213919-100220278 
ALTERNATIVE
HsaINT0157138
(SPAG1)
Human
(hg19)
chr8:101226147-101232506 
ALTERNATIVE
HsaINT0157138
(SPAG1)
Rat
(rn6)
chr7:75035527-75040340 
ALTERNATIVE
RnoINT0141947
(Spag1)
Cow
(bosTau6)
chr14:66339464-66345564 
ALTERNATIVE
BtaINT0139367
(SPAG1)
Chicken
(galGal4)
chr2:128194025-128197022 
ALTERNATIVE
GgaINT0096248
(SPAG1)
Chicken
(galGal3)
chr2:134057174-134060165 
LOW PSI
GgaINT0096248
(SPAG1)
Zebrafish
(danRer10)
chr19:12068511-12073524 
ALTERNATIVE
DreINT0154679
(spag1a)
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"