Special

MmuINT0073450 @ mm9

Intron Retention

Gene
ENSMUSG00000027883 | Gpsm2
Description
G-protein signalling modulator 2 (AGS3-like, C. elegans) [Source:MGI Symbol;Acc:MGI:1923373]
Coordinates
chr3:108481556-108485141:-
Coord C1 exon
chr3:108484924-108485141
Coord A exon
chr3:108482722-108484923
Coord C2 exon
chr3:108481556-108482721
Length
2202 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
CAATTTGTCTCCATCTTTAGGGG
3' ss Score
9.31
Exon sequences
Seq C1 exon
CACCGTCTGTCTCTGTGGTGTCCCCCAACACAGATGAGTTCTTAGATCTTCTTGCTAGCTCACAGAGCCGCCGTCTGGATGACCAGAGGGCCAGTTTCAGTAATTTGCCAGGGCTCCGCCTGACAAAAGGCAACAGTCCATCTGTACTTGAGCGCCTGATGACAAATGACAAGAAAGAGCCTGATGAAGACTTCTTCGACATCCTTGTAAAGTGCCAG
Seq A exon
GTAAGTGCATTCTGTGGAGTGGCCTGGGCTGCTGTTGGTGGCCTGTGCTGCTGTTGGTGGCCTGTGCTGCTGTTGGTGGCCTGTGCTGCTGTTGGTGGCCTGTGCTGCTGTTGGTGGCCTGTGCTGCTGTTGGGTGCTGGCCTTTAGGGAGGTGCCAAGACACCACTCAAGGGGTGGGAAAACGCAGCCTAGGATATGGGAGGCCAAAGCTTGGGGTTCCTTGACTCCTGGGTATCCAGTCACTGCTGGGAAACTGCAGAAAAGCTGGGAATGAAGTCCTCAGGCCACGAAGAGGCTGGCCAGGACTGGATGCTCCCAAACTCTTGGACATCCAGGCGCTGCTGGATCTCAAGGGTTAGAAACAGAATTGGAGGCCTGCAGGCTGAGGATGCTGAGGGTGGGAGCTCCAGCTTAGTTCACTGGTGAAAGTCCTTAGCTTAGCAGTGGTTGTCTGGGAGCACAGAGGCCTTCTGCAGGATGTGGCTTGGTATCAAAGGCTTTCTCCATGCTCCCCACAGCAGATAGACAGTCCACGTTTATCCATGTTTATTGACTGTTCAGTGTGGAAAATGGGTACATACCGTACCAAACCAACTCCTCAGGGTGGGCCAGAAATTAAATACCTTTTGCAAGGAGGAGTGTCTAGGGAGGGAAGCCTATTGGGTAAACCCTCAGGGTCTCTAGGTACCTCATTAGCATGGAGAACTGTTTTGGTTCACGTGTGAGAGGTGTGGCACATGTTCTAGGCCAGGAATCCAATAGGGAGGAGGGACACCCCTACAGTCTCAGGTAGGTGCCTGGGTGTTGGGGACTCTGAACCCGCTCAACCATCCCACGTTTCCTGGCATGGTCTACTGTCCCACAGGGCTCTTTGTGGATCAGGCATTATTTACTTGCCTGTCATTCAGAAGGCCACTAAATGCCTTTGTTACAGGGACGATTTGGGGCACCAGGATGCTCTTGCATCATGCATCTAAGTGGAAAGTCAAAAGTGTGTACAAAGAGCAAGCGACCAAGCCCGCTCAGTCAACAGGTTCTCCAGCGCGGGAGTGAGGATTAAAAAGAAAAAAAGACAGTTTTGTAGCATGACCCCAGTCAATTCTGAGACTGAAGGCAAATTTAATTTTCCCAGTCCATTTTTTATACCATTTTAGTTACATGCAAGTATTAAGGGTGAGCAGTACAATAAGGAACTAGCAAGGCAGTGGGCAAAGTCCCGTGATACTCCCGTGACAGTTGTTTAAAAGAGCTTGTCAGAATGACCGAAATACTTGGGCCCACTTCCTTGTCCAAGCCCAAAATCTTGCCTGAAGCCTACTTCTTTTGTTGCACCCGAAGATTAAAATTCCTGCCTTACCCTACTTCCCCATTATAGCCTAAAGTTAGATTCTTGCAGAAACTTACTTCCTTAGCATATCCTAATGCCAGTTCCTGCCTGAGCTTATGTCCCTGTCATGGGCAATGTCAGATTCCTGCCTGAAGCCCATTTCCTTGTCCTTGGCCAGTGTCAGACTCCTGCCAAGCGGCACCCCAAAAGGCTCTCCACAGGCAAGCAAGAGACAGTGTGGCAGTGGTACTATGAAGAAAAAGTAAAGGTTGAAGGGCTAGTGGGTGGTCAGAATAGGTAGTGACTTGGGGAACATCTGTTTTGTATACAACTGCTGTTTTTTTAGGAAAAAAAACCCTCTGCTGGGCCGTGGTGGCACTCGCCTTTGATCCCAGCCCTTGAGAAGCTGAGGCAGGCAGATTTCTGAGTTTGAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCGAAAAACCAAAAAAAAATACAAAAAACAAAAACCAAAAAACCCTTCTGGGTTGCCATTTGAATCATTTGTGCAAACAGCTTCAAACATAGGCAGTAGATTATAATTTGTTGGCCCCCTGGCCTAGGCCATTCTAGAAACACATTATAAAGAGAAGATTTTAATTTTGAAACTGTCATACCTGACATTTTAGTGTCAAATCATTTGTGACCAGCTGTAGTAGTATAATATACTTACGAAGCCCATTTCTCCATACTACTTGCTTTAGTCCCATTCTATCAAGTTTCGGGTCTGAAGACAACTTTCTGAAAAAAGCTAAAAGAAATGCTTATGGATCTAACTTCGAACAGATGATACAGCTTGGCATTCTCCTTTCTGACTGTTATGTTTCAATTTGTCTCCATCTTTAG
Seq C2 exon
GGGTCAAGATTAGATGATCAAAGATGTGCTCCTCCATCTGCTGCCACTAAGGGGCCGACTGTCCCGGATGAGGACTTCTTTAGCCTCATCTTACGCTCTCAAGCTAAAAGAATGGATGAGCAGAGAGTTCTGCTGCAAAGAGATCCAAACAGAGACAGTGAGTTTGGACTAAAGGAACTTTTGCAAAATAACGCTTTGTTGGAATTTAAGCATTCGGGAAAATAACTAGCAAACCACAGGATGGTGTGGTAACCTACTGAAGAAAAGGACTGGTCCCCTCAGGACACTGCAGGGAGCTCGCCACTGTAGCAGTCACCACATTTTTAGGGTGTGAATGTTGAGTACTGAGGGACTGACATTCTTCTGTCTCAGGGCAGAACGTCCTGTAAGGTGCTCCGTCAGCTTAACTGACCTTGAGATTCTGTGTGCGTGACTAGATTCCTTGGCTAGGGTTTGTGTAATAGGGATTTAAATGACTCCTACATTAGAACTCAGTCTTTTCTTACAGAGGCCATCTTTAAGGAGCTAGTTGACAGGGACTTTTTGTACCTGCCCATGAATATAGCAGATTGCATTGTTTATTGGAAATAATGTAAATGTCCTATGTAAAAAAGATGAAAATAGTCATAAAATTCTAGTTTAAGAAAACTATATTCAATATATTTTTAGGCAAAGCCAGTGAGGGAAATGAGAAATAAACTGCTTTTAGCATGCTCTGGGTTATCTGTCTCCTTTATTACATAACACAGTTATAAAGTAGCACAAGGCCTACTTTTAGGAGATGTACTGTTAGGAAAACTACATAGGCAGAAAACTCACAGAAAGTACGCAAGGCTTAGTTAATGTTAGACCATGAGCCTTCATCTAACGAGTTTACGAGACAGTGATCTTCTGGCCCGCATTTGGTGCAGACACTTAGAAGAAAATTCACTAAGAAAGCAAAGACTGCACACCAGACCAAAATAATGTAAAAATAAGTGTTTATTTTGTGTTTACAATGGTTAAGCATTCAACAATTATTCTGTTTTAAAAAGTGCTTTAACAACTACCTACCCTGTTCTTTTCTTAAAAGCCAGTTACAATGTGCTTTAACCTCAGATAGTCACACTAATCACTTGAGACAAGCCGCTTCTCTTTTCTGCAATAAACTGGCCTTGATATCGTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027883-Gpsm2:NM_029522:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.425 A=NA C2=0.365
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0218812=GoLoco=WD(100=31.5),PF0218812=GoLoco=PU(47.8=15.1)

							
A:
NA

							
C2:
PF0218812=GoLoco=PD(43.5=13.3),PF0218812=GoLoco=WD(100=30.7)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000029482





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr1:108924215-108929700 
ALTERNATIVE
HsaINT1014798
(GPSM2)
Human
(hg19)
chr1:109466837-109472322 
Rat
(rn6)
chr2:211480824-211482117 
LOW PSI
RnoINT0067133
(Gpsm2)
Cow
(bosTau6)
chr3:34546085-34550769 
ALTERNATIVE
BtaINT0068642
(GPSM2)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr8:1336018-1337925 
GgaINT0039877
(GPSM2)
Zebrafish
(danRer10)
chr2:45638892-45639181 
LOW PSI
DreINT0074567
(gpsm2)
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"