Special

MmuINT0179014 @ mm9

Intron Retention

Gene
ENSMUSG00000017667 | Zfp334
Description
zinc finger protein 334 [Source:MGI Symbol;Acc:MGI:2388656]
Coordinates
chr2:165202936-165208283:-
Coord C1 exon
chr2:165208191-165208283
Coord A exon
chr2:165207387-165208190
Coord C2 exon
chr2:165202936-165207386
Length
804 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
CTTCTGTTCCTTCCTTCCAGAAG
3' ss Score
11.25
Exon sequences
Seq C1 exon
GGCTTCATGTGAGCAAACCAGATGTGATCTTAAAACTGGAGCAAGGAAAAGAGCCCTGGGTAGTGGAAAACTTGTCACGACAGAACCACGCAG
Seq A exon
GTAAGTGTGATGACCAAGTGGGTAAAACTGAAGAACTCGAGTCCAGGCTGGTCCATGACCACAGCAGGCACCTATATGATCTTCTTCTGGAATCTTCTAGGACCTAGAGCTCTAGAAGTGATGGATGGGGAAACCAGCTCTCATAGACACTACAGTGTTCTCCTCAGATAGTCTGGTCACTTAACTGAGCGTATAAAAGCGTTCGGCTTTAAGTGCTCTATCCATGGAATGCAAGTGCCTTCACTGTGCACTGATTCCTTCATCTTTCCCCACATGCCCACCAGATGTCTTGCTTACTGCGATATAGCTCGTGCCCCTCACTGCCCACTTGAGGTTCCTGCTTCGTTGCATTTGCATAAATGCCAGAGTTCTCATCACTGAAAAGATGTCCAGTCGGCCCCTCCCTCCTACTGCTTCTGAGCCCTGGCTCCCGGAATCCTGCTTCATGCTGCGTGCGTTCCACTTAGTTCACACCAGGTCCTTGTCCTCTCACCAGGTCAGCCATGGAGAGCTATTGGGGACTGTCCCTGCTGCAGTGTTTCTGTCGGCGTCCAAGGCTCTTATGTTCTTGCCAGTTTCTGCTTTCTCTGACCTGGTTTAGTGAGCTGGTGTAGACGAGTTTGCTTTTGTCCCCTGACCCCTCCTCTCTCTCATCCTTTGTGGCTTTGTTTCCATAAAGTAGGGAGACATTTACCCTTAATCTCTTTAACGCTGGAAAGCCAGCGCTGAAGCTTTGGCCCCCGTAAGATTGTCAGAGGTTCACAGAACTCACATATCAATGTCACTTCTGTTCCTTCCTTCCAG
Seq C2 exon
AAGATGATGAGCCCTTAGAGAAGGACAAGAAAACACAAGACAAACATTTGAAGCAGTTTTCAGTCGTCAATAGCAAACCAATGCTGGAAAAGGCCAATCTGTCTGAGAAAACAGTTCCTCTCAACATGAATAGTGTTTCTTCGGGAAAAACACTCCATAAATATGACCCTGGCGGAAATGGCTTAGAAAATAACTCAGAAAAAACCATTGCAAAGCCAAGCAAAGCCAATGGGAAAGTAGCTGCTGATCAGGATGGGCGAGGAAAGCCAGCTCTGCACACCAAGGCTGACAGAAGTCACTCTGCGGCAAAACGGTACAGACGTAATGAAGTTAGGGATGTCAAGGGTCAAGGTGAGGGTCTCACTCAACAACAGAATACGCAGTCTGCAAGTCAGCCCTCCGAGCATCGTGAAGGTGAACAGGAGTCAGCCGGCGCTGCGAGGTCGGAGGAGCAGCCTGAGCGGAAGCGGAATGAATGCGCCGAGTGTAGGAAGACCTTTTCAAAGAGGTCCACTCTCATTGTCCACCTGAGAATCCATACCGGAGAAAGACCCTACGCCTGCAATTACTGTAGGAAAACTTTCCGTATAAAGGCAAGCCTCACTCGACACCAGCGGATTCACACCGGAGAGAGGCCTTACAAGTGCAAGGAGTGTGGCAAAGCCTTCATCGACAAGTCTGCCCTCATCGTGCATCAGAGGATTCACGGAGGGGAGAAGTCCTACGAGTGTAACGAGTGTGGCAAGACCTTCTTCCGGAAGTCAGCCCTGGCTGAGCACTTCCGGTCCCACACCGGGGAGAAGCCTTACAAATGCAAGGAGTGTGGCAACGCCTTTGGCAAGAAGTCGTACCTCATCGTGCACCAAAGAACTCACCGGGGCGAGAAGCCCAACGAGTGTAAGGAGTGTGGGAAGACCTTCTTCTGTCTGTCCGCCCTGACAGCACACCAGAGGATCCACACGGGGGAGAAGCCCTACGAGTGCAAGGAGTGTGATAAGACCTTCTTCTGTCAGTCGGCCCTCAACGTGCATCTGAGAAGTCACACCGGCGAGAAGCCCTACAAGTGCCGCCTGTGTGGGAAGTATCTGTGCACCAAGTCTGCCCTGGTGGCGCATCAGGTCATTCACAGAGGGAAGAAGACCTTCGAGTGTCCCGAGTGTGGGAAGCTTTTCTACCTGAAGTCCACGCTCACCATCCATCAGAGAACCCACACAGGAGAGAAGCATGGCTTGCTTAGTAAGTGGAGCCGAGCATCCGCTGCGAAGCCCAACTGCAGCGAGCAGAAGAGGGCGGACGCCAAGGACAACGTGCACGAGTGTCACGACCACAAGCGGCCAGCCCACAAGAGCTCCCGCCGCTTCGCGCACAAGAGAACCATATGGGAGAGGCCTTACGAGTGTGAGGAGTGTGGGCGGACCTACTGCAGGAAGTCAGCTCTCAGGCACCACCAGAAGACGCACACGGGCGAGCGGCCCTACGAGTGCAAGGAGTGTGGGAAGACCTTCTGCCAAAAGGTCTCCTTCACGGAGCACCAGCGGACTCACACCGGCGAGAAGCCGCACAAGTGCAAGGAGTGTGGGAAGTCCTTCCGCCACAAGTCGGCCTTCACCGTGCACAAGAGGATCCACACCGGGGAGAAACCGTACGCCTGCAACGAATGTGGCAAGAGCTACCGCCGCCTCTGGACGCTGACTGAACACCAGAAAATACACACGGGCGAGAAACCCTACGAATGTAACCTGTGTAAGAAGTCATTTCGCCACAAATCAAACTTCCTCTTACATCAGAAAACTCACAAGAAGTAAATTCCAGCAGGGTAACAGATAATTTACGAGGTGCCCAAATCCTGAATTACACATAAAGGTGTAAGGCCTTGTCAGCACGGGGACTACTACTGACGAGTTTCTGCCGGAGTCAGAGGGCTTACACGGACGACGTCCAACTCTCATTGTTAACTGTGAAGACATTCGGCATTTCAGACATTACACCAGGTGTGCCTGCCTCCCTTTCAAACCACGGAACAAACACTAAGTCCTACCTGCTCTCCCTCCAGTTAATTTGCATAGCGTATGATGTGGGCGTGAGGCCAGTGTTGATTCCAGATCATTACCAGTTGTTCCTGGGATAACTGGGCAGTGTCTGTTTATGAGTTTACAGTATTAACAGCTCAGACTACATAGCCTGTTTGTCCCCTGTCGCTGCTGTCTAGTGACAGGCCCTAATCCCTTCATCTGCAAAGGTGAGTCAGCCGAGCCACCCTTCACTTCCCTACCTGTAGCGACTCCCACACAGCAGTAAGCATTTGCTAAAGCCGAGTCATTGGTTTTCTAATAAGAGGCACAAGGTGGCTTGTAAGTGCCTCCTTGAGCTTCCATGTAAGCCAAGAAAACAGTGACCGCAGTTACCATAGCAAAACCAAAAATGAAGTGAGCAGATTTGAATAGTGAAGAGGATTTGGGGAGTGTTTGAGTCAAAACAGTGTCTGTGTTGTTTGTGTTTTAAATACCTCTGTTGTATTAGTGGTTTGATTATGTCAGTGTTTTCAAAAATATCTTGATTTTTTTTTTTTAATGAACATGTCCATAGGGGTATGATTTAGAATTTACCTGTCAGCTTCTGAGAAAACGTCTCCATGGTGCCAAATAGAATGACGTAGTGTGGATATGTGCATCTAGCCAGAATGTCTGCCATTCGTGGTGGGTTAATGTCAGGTCCTGGGAGCCAGCCCTGCTCTCTGATGTGCTGTGCTTTTCCTAGGACAATGAAGTGAGAAGGGCCACTGGGTATCTTGTCATGGGCCTTGCCTGTGGTTAAGCTGGCAAATCAGCCCTTGGCATGGCTGCCGTAAGTTGTGTTGTCCAGCTTAGTTTTGATAATGAGTGTCACTCTGACCTGTCTGCTGCCTCCGCTTGTGGTGTTGGGCTCTTAGGTAAGAAAAGATGCCCCTTGTTTGAGACCCATCAGAAATCCCAGTATGAACAAGATTATCTGTTTATTCAGTTTGTATTTTATATCCTTCAGTAAGGTAAATACATATTTGTGAATGCACATGTATTCGATATATACTAATATATGCTGAAACAGGAATATATGTATATATCAATAGTAGTCTTTTTCTGAAAATTTTAATAATTACTTAAAAGATTTGGGTTTGCTGTTGCAAATACAATTTTATCATCTGCTTTTAAAATTACTGATAGAGGCCTGACAAGGATTAGCAAGCAAAGGTGCTTGCTGGCAAGCCTGACAACCCGAGTTCAGACCTTCCGTCTCACGTAATAGAGAGAACTGATTTTCTTACACGCTACCCTGATTTCCACAAGTGTGATATAACATGCACACACACAACAAATACATACATGCATATATACATACACACATAAATAATAAATAAGATTTAAAGTGTTTTTAAAACTCACTGATCAGATTCTGAAGCATTTTTACCACACTTGTCAAAGTGCATTCCCTATACTTACTTTTCTTCGCTTGGTCTTAGAAAACTCCCAGCTCCTTGTAGAGGATGTTGGTGAGCTGTCTTGTGGAGGTAGTTTTTGCTCTTTGAAGATCTGTACCTAGCTGTCTAATTGTGCCTTCTGCTTGCCACTTATGAGACAAATCACAATCTTGTGATTATGGAATTGTTTCCCATTATTGGTTTGACCAAGGAAGAGAGTTTTTTCAAGTCTGGTGAGAAATATTTAAGTCCATAAATGGAAGGTCAGAGAGCCCCAATCACAGAAAGTCACAAGACACATCAGAGTGACACTTGAGGGTCCAGTGAGAGGACTCCGCTTGTTCTGCAAGCCAGCAACCCGGGACACCTATAAATGTGGACAGCGAGACCCGGCTCCGCAGGACTGTCCTCTGACTGTACGTGGGCTGCCGTCCCAAGCACACAGACAACAGTGCAGTTTTTAAAGTTGTTTTAAAAAGAAATAACTTGAAGACACGTAAAAAATCTAAAGCAACTAAATGGAAGAGAATCCTTAAAAGCAGCTGAAGGGAATGGCGACATGTAGGTCTGTGGACTTCCTACAGCTGCCACAAGAACCCATCACACTGATCAGAAGAGTGTGACGGTTCTCAGCTCACCTGTCAGGCCCAGTGCTGCGAGCCTGCTCCCTTCTGACCGCTGGAGGCCGGCTGGGCTTCTCCCGTGTGGTCTTCCTACAGCTTGTGGCAATGCAACTTCAGGTTTTGCTTCTGTCCTCACTACGCCTGTTCCTCCTCACTGTGCATGTCTGTCGTCTCTGCGGATGTCTGTCTATGTTTCCATTTTATCAGGACATGTCTGATCAAGGTCCCACCTTACTTACACGTGACCTCATGTTGATTGGCATCTGTAAAAGCCTTATTCCGTAAGGTCACATTGAAAGTATTAGAGGCTGGAGGGACATTATTGGTACCCTAAGACGTACCCCATGTTTAGCAGATTAAAATGACGGTAGATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000017667-Zfp334:NM_178411:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.375 A=NA C2=0.344
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0135222=KRAB=PD(0.1=0.0)

							
A:
NA

							
C2:
PF134651=zf-H2C2_2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=4.2),PF143531=CpXC=WD(100=16.1),PF134651=zf-H2C2_2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=4.3),PF0013017=C1_1=WD(100=8.5),PF097235=Zn-ribbon_8=WD(100=7.0),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.3)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000099373





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr20:46503098-46504213 
LOW PSI
HsaINT0186913
(ZNF334)
Human
(hg19)
chr20:45131737-45132852 
LOW PSI
HsaINT0186913
(ZNF334)
Rat
(rn6)
chr3:162059476-162060231 
Cow
(bosTau6)
chr25:39052840-39054971 
ALTERNATIVE
BtaINT0164910
(ZNF12)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
AGCCCTGGGTAGTGGAAAACT

				
R: 
TTTGCCGCAGAGTGACTTCTG

				
Band lengths: 
352-1156

			

		

	





	
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"