Special

MmuINT0094243 @ mm9

Intron Retention

Gene
ENSMUSG00000028649 | Macf1
Description
microtubule-actin crosslinking factor 1 [Source:MGI Symbol;Acc:MGI:108559]
Coordinates
chr4:123187888-123188282:-
Coord C1 exon
chr4:123188189-123188282
Coord A exon
chr4:123188043-123188188
Coord C2 exon
chr4:123187888-123188042
Length
146 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
3' ss Seq
TTATTCTTTTTCTGTCACAGGAT
3' ss Score
11.4
Exon sequences
Seq C1 exon
GCTAGAATTGCTGCTGCAGATTGCAAACAAGATACAGAATGGTGCTTTGAACTGTGAAGAAAAACTGACACTAGCTAAGAACACACTGCAGGCT
Seq A exon
GTAAGTGTTGTTACATGCGTTCCGCTTTTCACCCAGCTGCTCTGACAGTCAAAATCCAGCAGTGTTTCTTGCTTTCTCTTGGTTTTCTCCATCTTAGTGGGTGAGAGCAATAGAGGTTTCTCACCCTTATTCTTTTTCTGTCACAG
Seq C2 exon
GATGCTGCACACCTGGAATCAGGACAGCCAGTGCAGTGTGAGTCAGATGTCATTATGTACATTCAAGAGTGTGAGGGTCTCATCAGGCAGCTGCAGGTGGATCTCCAGATCCTACGGGATGAAAAGTACTACCAGTTAGAAGAGCTTGCCTTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028649-Macf1:NM_009600:12
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:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000081324f2416A





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000080755, ENSMUSP00000081324, ENSMUSP00000081324f6186A, ENSMUSP00000095508, ENSMUSP00000095509, ENSMUSP00000101827, ENSMUSP00000101831, ENSMUSP00000101831f2417A, ENSMUSP00000114568, ENSMUSP00000115847, ENSMUSP00000123246
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr1:39285391-39285603 
LOW PSI
HsaINT0098101
(MACF1)
Human
(hg19)
chr1:39751063-39751275 
LOW PSI
HsaINT0098101
(MACF1)
Rat
(rn6)
chr5:141192687-141192876 
LOW PSI
RnoINT0088135
(Macf1)
Cow
(bosTau6)
chr3:107334876-107335069 
LOW PSI
BtaINT0088373
(MACF1)
Chicken
(galGal4)
chr23:5327434-5328068 
ALTERNATIVE
GgaINT0137837
([1])
Chicken
(galGal3)
chr23:5642077-5642711 
LOW PSI
GgaINT0137837
(MACF1)
Zebrafish
(danRer10)
chr19:35597747-35600088 
LOW PSI
DreINT0091792
(macf1a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GCAGATTGCAAACAAGATACAGA

				
R: 
CTAAAGGCAAGCTCTTCTAACTGGT

				
Band lengths: 
234-380

			

		

	





	
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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