Special

MmuINT0102402 @ mm9

Intron Retention

Gene
ENSMUSG00000037974 | Muc5ac
Description
mucin 5, subtypes A and C, tracheobronchial/gastric [Source:MGI Symbol;Acc:MGI:104697]
Coordinates
chr7:148981751-148982043:+
Coord C1 exon
chr7:148981751-148981820
Coord A exon
chr7:148981821-148981905
Coord C2 exon
chr7:148981906-148982043
Length
85 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TCCTCATCTTTTGCCCACAGCCA
3' ss Score
9.62
Exon sequences
Seq C1 exon
GAGATCATGGTGAAAGCTACTGGAGAGGTCTTTGTGAACCAGATCTACACCCAGTTGCCAGTGTCTACAG
Seq A exon
GTGAGGGCTGCTTTTCTGAGTCTGAATGTGTATCTCCATCTCATGGGACATCCTTAAACTTGAAATCCTCATCTTTTGCCCACAG
Seq C2 exon
CCAATGCTACCTTCTTCCGGCCTTCAACCTTCTTCATCGTTGGTGAGACCAACCTGGGTTTGCAGCTTGAGATCCAGCTGAGTCCAATTATGCAAACATCTGTGCGTCTGAAACCTGGGCTCAGGGGGCTAACCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037974-Muc5ac:NM_010844:13
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:
PF0009420=VWD=FE(14.8=100)

							
A:
NA

							
C2:
PF0009420=VWD=FE(29.7=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000039699





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000122353, ENSMUSP00000131681
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr11:1168553-1168641 
HsaINT1023937
(MUC5AC)
Human
(hg19)
chr11:1161888-1161976 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr29:51453472-51453550 
BtaINT0096521
(MUC5B)
Chicken
(galGal4)
chr5:14166551-14166972 
LOW PSI
GgaINT0054946
([1])
Chicken
(galGal3)
chr5:15878121-15878542 
GgaINT0054946
([2])
Zebrafish
(danRer10)
chr25:8203663-8203755 
ALTERNATIVE
DreINT0005231
(CABZ01080550.1)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TGGTGAAAGCTACTGGAGAGGT

				
R: 
TCAGACGCACAGATGTTTGCA

				
Band lengths: 
174-259

			

		

	





	
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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