Special

MmuINT0063662 @ mm9

Intron Retention

Gene
ENSMUSG00000047730 | Fcgbp
Description
Fc fragment of IgG binding protein [Source:MGI Symbol;Acc:MGI:2444336]
Coordinates
chr7:28876484-28878916:+
Coord C1 exon
chr7:28876484-28877076
Coord A exon
chr7:28877077-28878333
Coord C2 exon
chr7:28878334-28878916
Length
1257 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TGTCATTCTCTGCCTCACAGGTG
3' ss Score
10.93
Exon sequences
Seq C1 exon
CACTGACCTGCCCACCTAACAGCCACTATGAGCAATGTTCCTACGGATGCCCACTGTCCTGTGGAGACCTGCCAGTGCAGGGAGGCTGTGGCTCAGAATGCCGAGAGGGCTGTGTTTGTAATGAGGGCTTTGCCCTCAGTGGTGAGTCTTGTGTGCCTTTGGCCTCCTGCGGCTGTGTACACGAGGGCGCCTATCACGCACCAGGAGAAACCTTCTATCCTGGACCTGGATGCGATTCTCTTTGCCACTGTGAGGAAGGTGGCCTGGTTTCCTGCGAGCCCTCATCTTGCGGCCCACAGGAGGCCTGCCAACCATCCAATGGAGTCCTGGGGTGTGTGGCTGTGGGCACTACTACCTGCCAGGCATCAGGAGACCCTCATTACGTCACCTTTGACGGCCGCCGCTTTGACTTCATGGGCACCTGTGTGTATGTGCTAGCGCAAACCTGTGGAAACCGGCCTGGTCTACACCAGTTCACTGTCCTGCAGGAGAATGAGGCCTGGGGTAATGGGAAAGTCAGTGTGACCAAGGTGATCACCGTCCTGGTGGCCAACTACACCCTGCGCCTGGAGCAGAGTCAGTGGAAGGTCAAG
Seq A exon
GTGAGAGCAGAGGCTCCTGAGGGGAGGGCCATGTGTATGTATGATGCACAGAGAGCAGGCAGAGTCCGCAGGAAAGTGTGAAACAGGGGTCCAATCAGAGGACATATTGGGAGAAAGCAAGGAGGCAGGGAACGTTCCATGGCTCTGACTCTTCTGTCACACACCACTGACTGTCCCCACTGAAGCTCTCTATCCTTCTCTCCTCATGGACACAATCGTCCTGCACCCCACATAGGGTCTGCCCCAGGCACCTCCCTGCTCTCACTATAGACAGGATGTGGTATAATCACACAGTGGAAGTTCAGAGATGGGAAAGGTTCGAAGAAGGGGGCAATCTGTGATGCCATTATCCCCTTAACTAGAGCAACAACAACAAAGCAGCTACACTGCACCTAGACTGCTGGCACAGACACAGTCCTTTTAACCCTGTGGAGTTGAAGTTTGCTTCCTTCCTTCCTTCCTTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTTCCTTTTAATATTTATTTATTTATTTTATGCATGTGACTACACTGTAGCTGTCTTCAGACACACCAGAAGAGGGCATCAGATCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGAAAGAGCAGTCAGTGCCATCTCTCCAGCCCTCGTTCCCTTCCCTTTCCCTCTCCTGTCTTCTTCTCTTCTCATCTCACCTGAAGACACTTGCCATTGGCTTTGGAGTCCTGTCTGATGTATGATTACCTCACTTCAAGATAGTAGCTCTAGTTACATCTGCTATGACCGTTCTTCAAAAATACTTTCTGAGGTTCTGGGTAGACTCATCTTTTTATTATTATTTTATTTTATTTATGCATGTCTCTGTGTGTATGCATATGTACATGTGGGTGACCACAGAGGACAGAGAGGGGCATCAGGTCCCTTGGAATTGGAGTTACAGGAGTTTGTGAGCAGCTTGGTGTGGGTGCTAGGGTCTGACCTCTGGTCCTCTGATACAGCAGTAAATGTTCTCTTAACGCTGGCCCCTCTCGCCAGCTTCCGAGAGAGATTTACCTTTTGGAAACCACCATTAAACCCAACTATAAGGCACTGCTATTATACATATTTTACAAATATGGGAGCTAGGGCCTACAGACGTGAGGTCACACAGGATTTCAGTGTCAGGTAGGAACACTTAGTGACAGACTGCCTCAAAGCGCGCCCTCTGAAGCTTGTCATTCTCTGCCTCACAG
Seq C2 exon
GTGAACGGTGTGGACACGAAGCTGCCTGTGATGCTGGATGGAGGCAAGATCCGAGTCTCCCAGCACGGGTCCGACGTCGTGATTGAAACCGACTTTGGCCTGCGTGTGGCCTATGACCTTGTGTACTATGTTCGGGTAACCATCCCAGGCAACTACTACAAGCAGATGTGTGGTCTGTGCGGGGATTACAACGGGGACCCCAAGGACGACTTCCAGAAGCCCGACGGCTCTCAGACAACAGACCCCAGTGACTTTGGTAACTCCTGGGAGGAAGCTGTGCCCGACTCCCCCTGCGCACCAGTGCCTCCCTGCACAGGAGATGACTGTGACACCGAGTGCAGCCCCGAGCTGCAGGACAAATATCATGGGGAGCAGTTCTGCGGGCTGCTCACCAGCCCCACAGGGCCACTGGCTGCCTGCCACAAGCTGCTAGACCCCCAGGGTCCCTTACAAGACTGTGTCTTTGATCTCTGCCTGGGTGGCGGAAACCAGAGCATTCTCTGTAACATCATCCATGCCTACGTGAGCGCCTGCCAGGCGGCTGGGGGGCAAGTGGAGCCATGGAGGACGGAAACTTTCTGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047730-Fcgbp:NM_001122603:7
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=0.113
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=WD(100=27.3),PF127142=TILa=WD(100=28.3),PF0009420=VWD=PU(50.0=39.4)

							
A:
NA

							
C2:
PF0009420=VWD=PD(48.7=39.0),PF087426=C8=WD(100=39.0)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000075945





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000114271
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr19:40408849-40411637 
HsaINT0063166
(FCGBP)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr18:49748772-49749970 
LOW PSI
BtaINT0061723
(FCGBP)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr9:14290858-14290950 
GgaINT0032049
([1])
Zebrafish
(danRer10)
chr15:36544659-36546338 
LOW PSI
DreINT0010760
(FCGBP (2 of 2))
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CTGTGTGTATGTGCTAGCGCA

				
R: 
GCACAGACCACACATCTGCTT

				
Band lengths: 
352-1609

			

		

	





	
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"