Special

MmuINT0179691 @ mm9

Intron Retention

Gene
ENSMUSG00000049728 | Zfp668
Description
zinc finger protein 668 [Source:MGI Symbol;Acc:MGI:2442943]
Coordinates
chr7:135008873-135011938:-
Coord C1 exon
chr7:135011270-135011938
Coord A exon
chr7:135010878-135011269
Coord C2 exon
chr7:135008873-135010877
Length
392 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGA
5' ss Score
4.59
3' ss Seq
GGTCCTCCATTATTCCACAGGTC
3' ss Score
9.79
Exon sequences
Seq C1 exon
AGAAGGCCTACTCACCAAGGCCATGGAAGTGGAGGCTACAGAGGCCAGGTCCCCAGGCCCCTGCTACAAGCGCTCTGGCCGCCGTTATAAGTGCCTGTTTTGTACAAAGACATTTCCAAATGCACCCAGGGCAGCCCGCCATGCTGCTACACATACACCCACAGACTGCACAGAGGAGGTGAGGGAGGCCCAGCCAAAAGTGGATACAGAGCCCAAGGCGGAGGAAGCCAGCGGAGACAAGGTATCAGCTTCAGTAGCCAAGCCCCGGCCCTATGCCTGCCCACTGTGCCCCAAGGCCTACAAGACAGCTCCTGAGCTACGCAGCCATGGGCGCAGCCACACTGGTGAGAAACCCTTCCCGTGCCCAGAGTGTGGCCGCCGCTTCATGCAGCCAGTGTGCCTGCGTGTGCACCTGGCCTCACATGCCGGTGAGCTGCCCTTCCGATGCACACACTGCCCCAAGGCTTATGGTACACTCTCTAAACTAAAGATCCACCAGCGTGGGCACACAGGTGAGCGGCCCTATGCCTGTCCTGACTGCGGCAAGAGCTTTGCTGATCCTTCAGTGTTCCGCAAGCATCGGCGCACCCATGCCGGCCTTCGACCCTACAGCTGCGAGCGCTGCGGCAAGGCCTATGCTGAGCTCAAGGACTTACGCAACCATGAAAG
Seq A exon
GTGTGATCCCTAGAGACATCTGGGAGACAGAAGTGGGAATTAGTATCTCGATAGACTATGCCAGTGGGAAGAGCTGCGGCTGGACACTTGTCTAAAGATGGGAGCGCCTGGTTGAACAGGGATCAGGCTGGGTGGCAGAGCTAAGTGACTAGAGATGGAACCCTGAGAGCAGGCAAGGCTTTGTTGGCCTCTGTTCCAGGCAGTATTTGGAGTCGGTCATCAGCAGGGTCTTGGGGGAGGGCCCATGTGGGTAGGTCATAGGAGAGAAGTTCTATGGATTTCTTACTCATGGTACAGCTCTGTGGCTCTTAGGGAATTAGCTCCCAGACAGGTGATTGTAGGGCTCTCCCAGTGAGTGTTGCAGTCTAACCAGGTCCTCCATTATTCCACAG
Seq C2 exon
GTCCCACACGGGTGAGCGCCCCTTCCTCTGCTCGGAGTGTGGTAAAAGCTTCTCTCGATCCTCTTCCCTCACATGCCACCAGCGTATCCATGCAGCCCAGAAACCCTATCGCTGCCCGGCTTGTGGGAAGGGCTTCACACAGCTCAGCTCTTACCAAAGCCATGAGCGCACACATTCAGGCGAGAAGCCCTTCCTGTGCCCACGGTGTGGCCGCATGTTTTCTGATCCGTCAAGCTTCCGCCGTCACCAGCGCGCACATGAGGGCGTAAAGCCTTACCGCTGCGAGAAATGTGGCAAGGACTTCCGGCAGCCCGCCGACCTGGCCATGCATCGGCGAGTACACACCGGCGACCGACCCTTCAAGTGCCTGCAGTGTGACAAGACTTTTGTGGCTTCCTGGGACCTCAAGCGGCATGCGTTGGTGCACTCAGGACAGCGGCCATTCCGCTGTGAGGAGTGTGGGCGAGCATTTGCTGAGCGAGCTAGCCTCACGAAGCACAGCCGCATGCACTCTGGGGAGCGTCCTTTCCACTGTAATGCCTGTGGGAAATCCTTTGTGGTGTTATCCAGCCTCAGGAAGCATGAGCGTACCCACAGAAGCAACGAGACTACAGGAGCTGCCCCCCAGCAGGAGTTGGTGCTGGGACTGGCACTGCCTGTAGGTGTCGTAGGTGAGGGCTCGGCCGCCCCCGTGGCGGGTGCAGGGGTAGGGGATGCTCCAGCGGGGCTGTTAGGGTTACCCCCTGAGTCTGGTGGTGTAGTGGCCACACAGTGGCAAGTGGTGGGTATGACTGTGGAACATGTGGAGTGCCAGGATGCTGGCGTTGGGGAAGCGCCTAGTACCCTGGGAGATGCAGGAGAGGTGGGGGGTGAGGAGACTGATGAGAAGCCCCCACAGTTTGTGTGTCGCGAGTGCAAAGAAACTTTCTCCACACTGACACTGCTACGCAGGCACGAGCGCTCACACCCGGAGCTCCGGCCCTTTCCCTGCACTCAGTGTGGTAAGAGCTTCTCAGACAGGGCTGGGCTTCGAAAGCATAGCCGCACCCACAGCTCTGTCCGCCCCTACTCCTGTTCCCAATGTCCTAAAGCTTTCCTGAGTGCCAGTGACCTGCGCAAGCATGAACGCACCCACCCCGTGCCCATCGGGACCCCCATACCCCTGGAACCTCTTGTGGCTTTGCTAGGAATGCCAGAAGAAGGGTCAGCTTGACGTCTATAGATCTCCACTACACTCCAGAAGCCCATCCCTAGTCTCCAAAGCCCTGCCTCTGGGCAACTCGCTCAACTCTTGTCCACTATTAGCTGTGGGCAGTGGAGGCAGATAGCACTTCTGAGGGAGACTCATTAAAGCATTGGCTTTGCTACCAAGCTGTCTTCTGTATTGTGGTTCAGTTTACCTTCAGTGGAAATCTGGGACTAGCATGCAGTGGAAGGGCCTTGGTGACAGACAGGCTCTCACAGCTTAGCCTGATCCAGAACTCACTATGTAGCCCAGGCTCACCTTGAACTCAACCAATCCTCCTGTCTCAGCCTCCCGCTACTAGGATGACAAGGACTTAGCACCACACCTGGCCCTAAAAGGTCTTGAAATACATTGATTGCCAAAGTATATGTTGGGCTGCCTTGTGAAAAAATTTTCATGCCAAGTTGGTACCTCTGAGAATAATTGGTGACTAAAAGGTGTATTAAAAGTACTAGTCCTGCAGTGAACAAACCTATGTGGCTTTGTTTAGCCTCTACTCAGGATCATGAAACCTTTCCTGATTACTGTCCTTTCACAATTAGTGAGCTGGGGTTAAACAATTACTTTTTCTCGGGGGCTGGAAAGATGGCTTCACAGTTTAAGGCTAAGGCTCACAATGAAAAAGGTTTGGTTCCCAGCACCTATACTTGTCTTTCCAACTACTTTAAAAAACAAAACGAAACTTGTCTTTCCTGTTTATCACAGTAACAAATTAGGAAGCATATTTGGAGGGAAGCATTTCTCTTCACATTAAAACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049728-Zfp668:NM_146259:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.292 A=NA C2=0.309
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF134651=zf-H2C2_2=WD(100=11.6),PF134651=zf-H2C2_2=WD(100=11.1),PF134651=zf-H2C2_2=WD(100=11.6),PF134651=zf-H2C2_2=WD(100=12.0),PF134651=zf-H2C2_2=WD(100=12.0),PF134651=zf-H2C2_2=PU(23.1=2.8)

							
A:
NA

							
C2:
PF134651=zf-H2C2_2=PD(73.1=4.7),PF134651=zf-H2C2_2=WD(100=6.4),PF097235=Zn-ribbon_8=WD(100=9.9),PF134651=zf-H2C2_2=WD(100=6.4),PF134651=zf-H2C2_2=WD(100=6.4),PF134651=zf-H2C2_2=WD(100=6.4),PF134651=zf-H2C2_2=WD(100=6.4),PF134651=zf-H2C2_2=WD(100=6.4),PF134651=zf-H2C2_2=WD(100=6.4),PF134651=zf-H2C2_2=WD(100=6.4)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000056105





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000101868, ENSMUSP00000101869, ENSMUSP00000101870, ENSMUSP00000116730
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr16:31062281-31063812 
ALTERNATIVE
HsaINT1047619
(ZNF668)
Human
(hg19)
chr16:31073602-31075133 
Rat
(rn6)
chr1:199313260-199313612 
ALTERNATIVE
RnoINT0168569
(Zfp668)
Cow
(bosTau6)
chr25:27433321-27433761 
LOW PSI
BtaINT0165943
(ZNF668)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chrUn_random:60557685-60560084 
GgaINT0004825
([1])
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GCCTATGCTGAGCTCAAGGAC

				
R: 
CCGGAAGTCCTTGCCACATTT

				
Band lengths: 
345-737

			

		

	





	
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"