Special

MmuINT0179788 @ mm9

Intron Retention

Gene
ENSMUSG00000012640 | Zfp715
Description
zinc finger protein 715 [Source:MGI Symbol;Acc:MGI:1917180]
Coordinates
chr7:50556540-50557107:-
Coord C1 exon
chr7:50556981-50557107
Coord A exon
chr7:50556636-50556980
Coord C2 exon
chr7:50556540-50556635
Length
345 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
AATATCCTTTTGATTAACAGGGT
3' ss Score
7.28
Exon sequences
Seq C1 exon
AGATGGATGTCCTTTGAGGATGTAACTGTGAACTTCAGCCAGGAGGAGTGGCAGCATCTGGACTCCGCCCAGAGATGCCTGTACCAGGAGGTGATGCTGGAGATCTACAGCCACCTCTTGGCAGTGG
Seq A exon
GTGAGCACGGCTGGCTGGGGACCCAGGGTGGACCTTATTGAGGAAAGATGTTCTTCCTTCTCTTTCCAAAGCATAGTGAGGTATCAGAAGTGTAATCTCTGTCAGTCTCTGTCTCTCTTCCTTCCTCCCTTCCCCGTCCCCTCTGTGCATGTGTATGTGTGTGCGTGCATGCGTGTGTATTTACTTCATTTGTCCTGGTGCTTCATTTCTTTTGTTCACCTACTAGGATTTATACAAAATAAGAGTGTTGACTTGGTTTTCCCAATGAGGTAGTGCAAAGCTTCATTGCATCATCTCTAAAAGATAAGAAACTACCCCAAAACCCAATATCCTTTTGATTAACAG
Seq C2 exon
GGTATTCCATTCCCAGTCCTGGAGTCATCTTTAGGATGGAAAAAGGAAAGGAGGCACAGACAGCAAAGGCTGAATTCCCAGGCCAGAGATGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000012640-Zfp715:NM_027264:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.014 A=NA C2=0.351
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0135222=KRAB=WD(100=100.0)

							
A:
PF0135222=KRAB=WD(100=95.3)

							
C2:
PF0135222=KRAB=PD(0.1=0.0)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000122812





     
                   









    
Main Skipping Isoform:
ENSMUSP00000040282





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000012796, ENSMUSP00000083175, ENSMUSP00000103620, ENSMUSP00000114600, ENSMUSP00000126156, ENSMUSP00000129988
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr19:51581518-51581786 
ALTERNATIVE
HsaINT0186304
(ZNF175)
Human
(hg19)
chr19:52084771-52085039 
ALTERNATIVE
HsaINT0186304
(ZNF175)
Rat
(rn6)
chr1:99488794-99489148 
Cow
(bosTau6)
chr18:57904317-57904706 
ALTERNATIVE
BtaINT0164956
(ZNF175)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chrUn_random:62786287-62786329 
GgaINT0004822
([1])
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TCCTTTGAGGATGTAACTGTGAACT

				
R: 
CTTGACATCTCTGGCCTGGGA

				
Band lengths: 
214-559

			

		

	





	
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






Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"