Special

MmuINT0072147 @ mm9

Intron Retention

Gene
ENSMUSG00000026754 | Golga1
Description
golgi autoantigen, golgin subfamily a, 1 [Source:MGI Symbol;Acc:MGI:1924149]
Coordinates
chr2:38908476-38911670:-
Coord C1 exon
chr2:38911580-38911670
Coord A exon
chr2:38908551-38911579
Coord C2 exon
chr2:38908476-38908550
Length
3029 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
CACCACCCTCCTCACCCAAGACT
3' ss Score
2.45
Exon sequences
Seq C1 exon
GCTTCCGATGGTAGCAGCTCCAGAGAAGATCTCTCATCCCAGCTTTTGAGAAGAAATGAACAGATACGGAAGTTAGAGGCCAGACTTTCTG
Seq A exon
GTATGTATTAAGAAACCATAAACAGCAAACATAGGCCTGCTATGAGCCTGCTTGATAGGGTATCTCTATAGTAACTTCCAGGTAACAGCTGAGCTCCTAGTCAAAAAGTTTTTTTTTAAAAGCATCTATTTTTCTGCTCCTGAAGTTTCTAGCCACAGATATAAAAAGTGTTTAAAGTTTATGTAAAGGATGGTATGGTGCTGCAGGCCTTTGATAATAGTACTTAGGGAGGCAGGAAGATTGTAAATTTAAGGCCAGCCTAGGCTACATAGCAAGTTGCTGGGGGGCGGGGTGGGGGGATTCAGAGAGATGGTTCAGAGGGTCGGTGGACCAGCTGCCAAGACTGACAACAGAGTTTGATCCCTGGGACCCAAATGGAGGAAAGAAAGGATCACCTTCTGAAAGCTTTCCTCTAATGCATGCATGTGCACAGAAAATTAAAAAAAAAACAAAAAACATGAAGTTTGAAGACTTTTACTTTTTTACAATGAGAAAAAAATGTAGAATAGATTTGGCCATGTTCCACCATTAGCATAGCTTACTTTTAGATGCAAAATTATAGGGACCACTCTCTATAGGCTAGGGAATGAGCAACAGATGTTGAATCCATGTGCTACAGATAAGTTTTGCTGCTGGGCTGCCACTTAGTGTAGCTCACATCACTCATGTGAGTCTTGCTCCAGGACTTGAGGCCATTTTTTCCTGATTTTCCTAACTTTATTATCTGCTTCTTTAGGAGGTGTAATTCTCATTACATCTCTGTCTTAGTCACTATACTACTGTTGCTGTGAAGAAACACCATGACCAAGGCAACTTTTAAAAAAGAAAGCATGTATTGGGGGCTTGCTTACAGTTTCAGAGGTTTAGTTTAGTCCATTTTTATCATGGTGGGAAGCATGATGATTGGCAACTGTGGTGCTAAAGAAGTAACAGAGACCTATATCCTGATGTGAAAGCAAAGAGACATCGGGCCTGGTGTAGGCTTCTGAACCTCAAAAGAACACACCCAGTGAGTGACACAGTCCCATCAACTAGGTCACATCTACTCCAGCAAGGCCATGCCTTCCAATCCCTCTAAAATAGGACCACTCCTTGGTGACTAAGCATTCAATTATATGAGCCCGTGGGAGCCATTCTTATTCAGTTCTTATGCTGTTCAGTTTAAATTTACATAGCTCCCATTATATCCTTTAACCAAACAAGGCATGTTCATACTAGAATTGTGAATTTTTATATATATATTTTTTGACAGTAGACATATTTTGATAGCTTCATCCTGTGAAGTGGTTCATGATTTATGTGTCTCCTTTTGTTCCTTGAATTTATGCCAATTTTTTTTTTTTGCGGGAAAACAGTAAAGTAAAATTATTTCACTGGATTGTATGTGAAATAAATTTGTATAGCTGTCAGAAGTCTATAGCATTATTCACACGATTGTTAATCATTTTTTCTTCAGGTTCAGCTTCTTGGGGTCAACAAAATAAGGCACACGGGTAGTGAATTCAAACTAAAATTCAGACCTAGCTCCAGACAGCCTGCTTAAAGTCAGCTGTTAGTATCTTGTACACCTATCCATAACATTGGTTGTTCTATCTTGATACCTGTAAAGAACACTAGTAGCAGAAGTGAAATAGCTATTCCTTAATGTTGGGAAGGCTCTTATAGTGTTAGTAAGTGCTTTTCCTGATACAGAAAGGAGAGTGAGTAGCCTTGACATTTATCAGTCCACTTAACATCTTAGGAATTGTCACTGGCCTTGTATGAGTACTCATTGCTGTGTGCCAAGCACTTAATGTATAGATTACTTTAATGTTTCCTTTGAAATATATGTAATTAGGCCCAATGTGTAATTAGGCAGTTTAATCCCAGCACTCAGGAGGCAGAGGCAGATGGATCTCTGAGCTTGAAGCCAACCTGGTCTACAGAGAAAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCCAAAAAAGAGAGAAATAAATATTATTAATACCAATTAATATATGAAGAAACTAATATTCCAGATCAGCAATTTACTTAAGATTCTTAGCTAAGAACTGACAAAGTTGAGATTTGAACTACTCTCTGCTTTCTCAAAGTGTTTTCTTTGGCACCTCAGATAATTCTTTCACCTCTGAGGTGACCTATGTCACTCAGTTCCTGTGGAGCACCTACCCCAATCTAGAAATTGAGCACCTATAGCATAAAGGCAGTTCTATGCTAAGGTGTTTGCTGTTCAGTTGTATGGTTGCAAGTGAGCTTTTAGTGATTACTCTTGATCTGGCATACTGCTAAAGGCAACAGGGAATGGGAACTTCTCAGTCACTGTTCTATTGCTATGTTGAGAGACCATGACCAAAGCAACTGTTACAAAAGAAAACATTTAATTGGGGGCTTCCTTACAGTTCCAGAAATTTAGTCCATTATTGTCTTAGCTGGGAGTGGCAGCGTGCAGGCAGTCACTGGAGTAGCTGAGAGTTATTATCCTGATCCATAGGCAGAGAGAGACAGATATACTGGCTTCACGTAGCTTTTGAAACCTCAAGCCCACCTCTTGTGATATACTACCAACAAGGCTCTACCTCCTAATCGTTCTAATCCTTTCAAATAGCCCCACTCCCTGATGACAAAGCATTCAAATATGTGTGCCTGTGGAAGCCATTCTTATTCGAAGCACCAAAGGGAAACTGAGATGTAGAATAGATGAATGGAGATGATGGTGGGTTTTTTATAGCAGGGCATTTCTGATGACCAGGCCTAGCCTAATTGTTCTCTGTCCAGGCTAAACAAACCTACCTGTGTGTACTCACTGTTTATTCCATGGAAAGTTTGTACTATTCCTGTTTGCCTGTGTCATTCATTGTTAATGGGAGGCTTTCTACCTAGCTTTTCTTAACAGGACTGGTATTCAGGTTAAGAAAATCATCATCATCTTCATTTATTTTTTTTTTGTTTGTTTAATTAACTTCCTTTCCTGATGTTTGTCCACGACTGGTATGTGCACCACCCTCCTCACCCAAG
Seq C2 exon
ACTATGCTGAACAGGTCCGAAACTTGCAGAAGATAAAAGAGAAGCTTGAAATTGCATTAGAAAAACACCAGGATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026754-Golga1:NM_029793:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.484 A=NA C2=0.192
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000037735





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr9:124929291-124931315 
ALTERNATIVE
HsaINT0070377
(GOLGA1)
Human
(hg19)
chr9:127691570-127693594 
ALTERNATIVE
HsaINT0070377
(GOLGA1)
Rat
(rn6)
chr3:23342249-23345377 
ALTERNATIVE
RnoINT0066246
(Golga1)
Cow
(bosTau6)
chr11:95902553-95904565 
LOW PSI
BtaINT0067840
(GOLGA1)
Chicken
(galGal4)
chr17:9565257-9565917 
ALTERNATIVE
GgaINT0126267
(GOLGA1)
Chicken
(galGal3)
chr17:10286250-10286910 
ALTERNATIVE
GgaINT0126267
(GOLGA1)
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"