Special

MmuINT0102485 @ mm9

Intron Retention

Gene
ENSMUSG00000066108 | Muc5b
Description
mucin 5, subtype B, tracheobronchial [Source:MGI Symbol;Acc:MGI:1921430]
Coordinates
chr7:149056182-149056676:+
Coord C1 exon
chr7:149056182-149056295
Coord A exon
chr7:149056296-149056589
Coord C2 exon
chr7:149056590-149056676
Length
294 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CATCTCTCCTGTCTCCACAGGGC
3' ss Score
12.36
Exon sequences
Seq C1 exon
GTTGGTACAACCTTCCCAGGGGGTCCCTGCCACACATGCACCTGCCTCTCTGATGGTGACCAAGAGCCAAAAGTAGAGTGTAAGGAGACGAACTGTACCACCTCTTGTCCCCAG
Seq A exon
GTGAGCCTGTGGCCCAGAAAACATCCTAAGAGGCTACCCATGGCAGCCTATCACTGAGAGTCCTCCAGTTCACCCTCAGTTTGAGGTCTGTTTTAAAAGGCTGTTGTATTAGGAAGGTTGAGAACCACTGCAGCCAACAAAGAGAAGCAGGGTGAGCTAAGCTGTAAGACCTGGGAGCACAGAAAGATATGACCTTTCTGCAGTTCTTGTTAAGGAAGCCCAGAGCCCCAAGTGTGTGCTTAGGAGGGTGACTGGGATACATGAGAGACCTGACCATCTCTCCTGTCTCCACAG
Seq C2 exon
GGCTTCAAGTACACGCTGGTGCCAGAGCAGTGCTGCGGGGAGTGCCTGCAAAATGCCTGCCTCACACCAGAGGGCCACGCGGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066108-Muc5b:NM_028801:44
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:
PF0009313=VWC=FE(59.7=100)

							
A:
NA

							
C2:
PF0009313=VWC=PD(22.6=48.3)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000128276





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000081462
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr11:1280292-1280985 
ALTERNATIVE
HsaINT0106839
(MUC5B)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr29:51371368-51371721 
BtaINT0096579
(MUC5B)
Chicken
(galGal4)
chr2:419891-420495 
Chicken
(galGal3)
chr5:15961335-15962244 
ALTERNATIVE
GgaINT0051551
(MUC5B)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GTACAACCTTCCCAGGGGGTC

				
R: 
CTGTACCGCGTGGCCCTC

				
Band lengths: 
197-491

			

		

	





	
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






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