Special

MmuINT0035273 @ mm9

Intron Retention

Gene
ENSMUSG00000026365 | Cfh
Description
complement component factor h [Source:MGI Symbol;Acc:MGI:88385]
Coordinates
chr1:141998162-141999123:-
Coord C1 exon
chr1:141998914-141999123
Coord A exon
chr1:141998336-141998913
Coord C2 exon
chr1:141998162-141998335
Length
578 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGA
5' ss Score
6.29
3' ss Seq
CTCATTTGTGTCTTTTTCAGGAC
3' ss Score
12.73
Exon sequences
Seq C1 exon
AAAAAATTCCATGTTCCCAGCCCCCTACAATAGAACATGGATCTATTAATTTACCCAGATCTTCAGAAGAAAGGAGAGATTCCATTGAGTCCAGCAGTCATGAACATGGAACTACATTCAGCTATGTCTGTGATGATGGTTTCAGGATACCTGAAGAAAATAGGATAACCTGCTACATGGGAAAATGGAGCACTCCACCTCGCTGTGTTG
Seq A exon
GTGAGAGTGACATGAAAACACAATAGTAGTTTTAAACAAGTCATTACCAATATTCTACTCTCATCCAAAGCAGGAGACAGAATTATTTAGATCAGAACATATACACATTTATATATTTTAACCATATATTTGTACTTGCATAATTCAATTTATGCTGCTGTAATTGATTGTACTCTTTCTATTGAAATCTAATTTTACTTTCACATTTCTGTTTTTAGAAATAATGTAAAGTATATAGACTTCATTAGCTCTTGTGAATTGTATTTTTTGATTTGCCACCAAGTGTTAAAGTCCAAAATGTTTTTTCTCAGAATATGATCCTCCCACCCATTCCACAATATATGGTATTTTCTGAGAGTATTAATTCTTTGTAATTATTAATTAATTGTTTAACAGATGCAAGACAACAGAATGTGGTATTAGGAAGCATTTCCCACCTTTTTTATGATGGCATATCTTGCTTGTTAACATTTCATTTTAGTACAGTTATGTACAGAACAAATACAAACAAGTGAATTTCTGTATTAGTGCAATGAGGAATGCTTTAACTATGTTACTCTCATTTGTGTCTTTTTCAG
Seq C2 exon
GACTTCCTTGTGGACCTCCACCTTCAATTCCTCTTGGTACTGTTTCTCTTGAGCTAGAGAGTTACCAACATGGGGAAGAGGTTACATACCATTGTTCTACAGGCTTTGGAATTGATGGACCAGCATTTATTATATGCGAAGGAGGAAAGTGGTCTGACCCACCAAAATGCATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026365-Cfh:NM_009888:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
No protein impact description available





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.296 A=NA C2=0.017
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0008415=Sushi=WD(100=91.5)

							
A:
NA

							
C2:
PF0008415=Sushi=WD(100=91.5)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000107607





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000066677, ENSMUSP00000107608, ENSMUSP00000115166
  



Associated events






Conservation


Human
(hg38)
chr1:196737661-196740618 
LOW PSI
HsaINT0034126
(CFH)
Human
(hg19)
chr1:196706791-196709748 
LOW PSI
HsaINT0034126
(CFH)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr16:6104632-6105332 
Chicken
(galGal4)
chr8:2646307-2646807 
LOW PSI
GgaINT0039786
([1])
Chicken
(galGal3)
chr8:2672598-2673098 
LOW PSI
GgaINT0039786
([2])
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
ATGTTCCCAGCCCCCTACAAT

				
R: 
CAGACCACTTTCCTCCTTCGC

				
Band lengths: 
356-934

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






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