Special

MmuINT1010410 @ mm10

Intron Retention

Gene
ENSMUSG00000075415 | Fnbp1
Description
formin binding protein 1 [Source:MGI Symbol;Acc:MGI:109606]
Coordinates
chr2:31036118-31036663:-
Coord C1 exon
chr2:31036542-31036663
Coord A exon
chr2:31036255-31036541
Coord C2 exon
chr2:31036118-31036254
Length
287 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAG
5' ss Score
6.62
3' ss Seq
TGTCTTCCTCTCTTGAGCAGCCC
3' ss Score
7.07
Exon sequences
Seq C1 exon
GCCTGGCTGGCTGAGGTAGAAGGCAGACTCCCAGCTCGGAGTGAGCAGGCACGCCGGCAGAGTGGACTGTATGATGGCCAGACACACCAGACGGTCACTAACTGTGCCCAGGACCGGGAGAG
Seq A exon
GTACAGTACCTGCGAGGCCCTGCCTCTGGCAGAGAGACGGTCTAGCTTTGTACTTACTTTTCAATTCTGGAATAATTTCTCACGGACAGAAGGCAAGAGTGTCTATTGTGTGGCCTCTGATTCATCCAACGGGAGAATATCTCAGTTTACTTTACATCCAGTCCGGGCTGGTGGTCTGAGGTAGCAGCAGCTCCCACAGCCTGGTTGAGCATTGCTCCACGGGGTGGGGCAGAGCAAGTCTCCAGGTTGGTCGCTATAGTTGTCCTGTGTCTTCCTCTCTTGAGCAG
Seq C2 exon
CCCAGATGGTAGTTACACAGAGGAGCAAAGCCAGGAGAGCGAGCACAAGGTCCTGGCCCCGGATTTCGACGATGAATTTGATGATGAGGAGCCGCTTCCAGCCATAGGGACCTGCAAGGCCCTCTACACATTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000075415:ENSMUST00000113560:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.779 A=NA C2=0.787
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF143891=Lzipper-MIP1=PD(10.8=22.0),PF154561=Uds1=PD(12.3=24.4),PF0218511=HR1=PD(0.1=0.0)

							
A:
NA

							
C2:
PF0001823=SH3_1=PU(14.6=14.9)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000109190





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000074796, ENSMUSP00000097781, ENSMUSP00000097782, ENSMUSP00000109184, ENSMUSP00000109188, ENSMUSP00000109189, ENSMUSP00000109192, ENSMUSP00000115013, ENSMUSP00000141681
  



Associated events






Conservation


Human
(hg38)
chr9:129900102-129900425 
Human
(hg19)
chr9:132662381-132662704 
LOW PSI
HsaINT0065313
(FNBP1)
Rat
(rn6)
chr3:9868445-9868709 
ALTERNATIVE
RnoINT0061823
(Fnbp1)
Cow
(bosTau6)
chr11:100295589-100295906 
LOW PSI
BtaINT0063342
(FNBP1)
Chicken
(galGal4)
chr17:5739780-5740234 
ALTERNATIVE
GgaINT0124070
(FNBP1)
Chicken
(galGal3)
chr17:6296499-6296953 
LOW PSI
GgaINT0124070
(FNBP1)
Zebrafish
(danRer10)
chr21:6270325-6270767 
LOW PSI
DreINT0069244
(fnbp1b)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CTGGCTGGCTGAGGTAGAAGG

				
R: 
AATGTGTAGAGGGCCTTGCAG

				
Band lengths: 
252-539

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Ribosome-engaged transcriptomes of neuronal types
  • Neural differentiation time course
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types





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