Special

MmuINT0179974 @ mm9

Intron Retention

Gene
ENSMUSG00000046185 | Zfp84
Description
zinc finger protein 84 [Source:MGI Symbol;Acc:MGI:107780]
Coordinates
chr7:30560924-30566438:+
Coord C1 exon
chr7:30560924-30561010
Coord A exon
chr7:30561011-30561150
Coord C2 exon
chr7:30561151-30566438
Length
140 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
ATGAACTTACTTTCTTTCAGATC
3' ss Score
10.21
Exon sequences
Seq C1 exon
GACTTGCCATTTCTAAGCCATCAATAATTTCACTGCTGGAGCAAGGCAAAGAGCCCTGGATAGTGGAGCAAGCAGGATGGTGCCCAG
Seq A exon
GTGAGGAAAGACGACTGCACATGGTGCGCAGATAAATACGTAGGCGAAACACTGATGCGTGTTAAATAGTGAGGAAGCACATGGTTCTGTTTGTCTGGTGCCCCGTGTCTGCTCGCGCTGATGAACTTACTTTCTTTCAG
Seq C2 exon
ATCTGCTGTCTGTAAATGAAGCTAAGAGTTTGTCTCTAAAGAATGGCATCTTTGGAAAGGAATCGTTAAAATGGAAAATAATAGAAAGAGTTGGTAGTTCTTGCCTTGAGGAATCTTGTTTTGGAGATGATTGGAAATGCAAGGGACTCCTTGAGACAAAACGGGAATCTACAGAGGAATATTTACAGGGAGTGACAGACCCGTTGGAAGAGACGTCAGCCAGATTCGTTCAGCCTGCACCCATTGCTCTGAGTGAAGTGACGCATTCCGAAACGAAACTCTCTGAGCAGGACGCAGGCGAAACCATCACTCAACAGGTGCGAATTCCTACCAGTGACAAACTTAATGAAATGTACGAGAATGCCTTTATCTATTACACAGGTGAGATGAAGCGTCAGCAGGACTTTGCTGGGGACAGATGTGATGAGCTAAAGGCGTGCAGCAGAGGATTCGCCTATGACTTTCAGCTCGCCCCGTATCAGATCAACAAGAAGCCCTACCAGTGCGAGATCTGTGGCAAGATCTTTGAGAAGCACGCTTACCTTGTTCAGCATAACCGCTTTCACACGGGGGAGAAACCCTGCGAATGTAAGGAGTGCGGGAAAGCCTTCACCAACTGCTCGCTGCTCGTCCAGCACCAGAGGGTCCACACGGACGAGAAGCCCTACGAGTGCAAGCACTGTGGGAAGGCCTTCCTCTACTTCTCCACGTTTTTTCAGCATCAGAGAACCCACACCAACGAGAAGCCATACGAATGCCACAAATGTCAGAAGGCCTTTAACAAGAGTGCCAACCTCACTAGACATCAAAGGATCCACAGCGGCGAGAAACCCTACGAGTGTAACTTATGCGGAAAGACCTTCACTTGGGCTTCCAACCTGAATGATCACCAAAAGATTCACACCGGCGAAAAACCTTACGAGTGTAACTACTGCGAAAAGGCCTTTCTCTGCCATTCGGCCTTCATGAAACACTATAGAACTCACACAAACGAGAAGCCCTACGAGTGCCAGGAGTGTATGAAGGCCTTCCGGCAGAAAGCCCATCTCATCCAGCATCAGCGAGTCCACACTGGCGAAAAACCTTACGAATGTAAGGAGTGTGGGAAGGCCTTCGCGTGTCCTTCCTACTTTAACAGACACCAGAGGATTCACACTGGAGAGAGGCCTTATGAGTGTAAAGAGTGTGGGAAGGCTTTCATTGATTGTAAAACTCTCATTCTGCACCAGAGGATCCACACTGGCGAGAAGCCCTTCCAGTGCCAGCAGTGTAGCAAGGCCTTCAGGCAGAGGTCCCACCTGACGCAGCATCAGAGGATCCACACTGGCGAGAAGCCCTACGAGTGTAAGGAGTGCGGGCAGGCCTTCACTCGGCTCTTACAGGTGAAGAAACACCAGAGAGTCCACACGGTGGGGGAAATCCTGTGTATCTGAACACTGCCCTCTATTTACTGAAAATCCCTGACTCAGCATCTTCACAACCACACAGAAGATAAACATTAATGACTCGGAAATGCGGGAAACACCTTTATGTGTCCCTCAGCTATGCAGACTGCTGGAAAAGCCTTCTGGAAGGGAAGGGTGTGAAACAACCTCTCAGACTGTGCTTCACGTTGTGCAATTTATACTATGCTCAAAATAGGAAGCTCTCCTTATTTTCGGCTATTCGTTATGGAATAGAGTTTGTCAGAGAGAACCATCTGATGACTATTCTATTTTTTTTTTTTGCTTTCTTCTTTTTTGTTTTTTGTTTTTTTGCTTTATAACCTACTGTTTATTGAGTATTAATTCACATAGGAAAAATAAAAATTAAATTATGAATAGAAATACTAATTCTATTACCAGTAGAAGGGTTCTATTTAAGTATAGTTATAGACAGTACCACATAGAGAACAATGGTGTGCATGCTGTTAGTGTAGGGGTTTCACATGCATCGATTGCTGACTGTGTTTTATTAAGTTGACTTCAGCCCTGCTTCAGATTGCTGCCTTTTAGCTGGGAGGATGGTTATTTTGGGGACGGGATGAATCAGTAAATGGGGTCTTTGGCATAGCTGCTAGACAGGATCAGGAAGGATTCGGAACCGTCCTCTTATGATGTTCTTTGTTACTATTTTTGGAACATTCATACCCACTTTATTCATGACATCGCCTGTCAGTGCTTGTCCCATGCCAAAGCCTTCAAAAGGAGTTCCGGCGTGACAGTGATTGGAACGGAACACGAGCAGATTTCCACTTCGACTTGAGTTGAGTCTGAAAGCCGACCCTAGCAAGGCCACATGGACTCACTGCTCAGGGTGCCCGGCACAGCAGAGGACAGTCGGATCTGTGCAGGACAAGAATTGGAACAAACTCATAATCTGTCACCGTCACCAGGTGACTCTCAGTCATGTGAAAAGTGCAGTCTGAAAATACAGCTTGCTTCAGTGTGGAAGAACAACAGCTCTACACACTAAAGCCTGGCGTGGTTCATTTGAATAGATGTTGTCAAATTACACACCTTCCCCCCCCCCCCCAAAGAGCAATAAATCTTAGAGTTGACAGCAGAATTACACATTATATACAATAATCAATGAATTTAAAGAAGTTTCTAAAAACCATCAATAAAATGGATAACCGGACTTTAGGAGCTTTTTCCAAATCTGATACATAGACTAGGTTTTCGGGGGCCTAGAGGGACATTTGAAAGACACAAGCACAACCGTCAGAGCTAATGGGAAGTAGAGCATTCCCAGGCAGAAGTATGTTTGTTCGGTTGGCTTTGGTGGGTTTTATTTTAAGACATGGTCTTTCTTAAACTTGTGGCAATCCTCCTGCTTGAACCTACTGAGTGCTGGGATTAGAAGTGTGAGCTACCACACTGGCTTGAACTTGGAGCCTTGAGCCTGCTCAGCTTGGCTCTGCCCTAGAGCCTTTTATTCCCGGCTCTCTTTGTTCTGAGGCAGGCAGGGTCTTGGCTAAATGGCCTAGGCAGGCTTTGGTGCCCTTACATTAAGCCTCTCAAATAGCTGGGGCTATAGACCTCTGTTACCAGGTACAGACAGAAAGTTTGACTGCTATAAAATAAGGTATTCTCCAGATTTCAAAATCAGGCAGCAAGCAAAGGCAGTGAACATGGAATTTGCCAGTGGGAAATTGTGTGGTAGAATGGTCAACATAAATTGTATCAGTAACTCCAATAACCTTTTGAATAGGCTGATTGCTGTAGTTGAAAGGAAGTGTTTTTTAATTTTTTAAACAGATTTTTTTTCTTCAAAGGTTTATTTATTATATGTAAGCACACTGTAGCTGTCTTCAGACACACCAGAAGAAGGCATCCGATTTCATTACAGATGTTTGTGAGCCACCATGTGGTTTCTGGGATGTGAACTCAGGACCTCCTGAAGAGCAGTCAGTGCTCTTAACCGCTGAACCATCTCTCCAGCCCCCCCCCCCCCGAAAGGAAGCTTTTTTTCTCATTTAAATGGAATACTAGGTTGGTGTGGGTCATATCTGAAATTATCCCTGGCAAGGAACGATATTGCTGTGGCTTCAGATTAGCCTGAGGTCCATAGGACAGCCCCAGCTTAAAAGTGGGAAAGGGAAGACAGACAATGCTGCAGAAAGATCAAAACTGAGGGACGGGGGAAGCCCGTGCTGTTGAGATACTAACCAAAGGAGTTCAAGAAGAAACAACAAAAAACTGGTTTACCAAAAAATTAGGGAAAAAAGAACATAATGTGTGAAGATTCGTTAAAAGGGTCAGGATGCTTTTATTTGTATGTAACCAGCAGCATGGGCTCCATAAAGAAAAAGCAAAAGTTAATCAGAACTACAAAGAAAAAAGCCAGCTTGGACTTTAACATGGCTGTCAGGCAAAATCAGGACAGCACATTTGAACAAAGACCATTGAAAAGTCTAACACACACATGGCCTCTCGCAAACTTACAGAATACTCTTTTATATAAGAATTTATTTCCTGTGTCTTAAACTTCAAGTCTGAATCAGTATCAGTCAGTTCTAATTTATCTAATGCATTCTTACCTAGGCCTAGAGATGTCGCTCCATATATTTTGAAATATCTTAAATATCCTTGAAACAACCATTAGTTAAAGAAAACTTAATGGAGCTGAGGAGGAAGTGGTAGTTTGTGGTATGCAGTCGTGTGTAGCGGACAGGGTTTCCAGGAAACAGGTCCCGTGAGGAATTCATTGTCTCAAGATGATAGAGCATTTTAAAAGGTGGAAGCAAATGTAACACGTTAGGAATTTAGTGGGAAGCAAAAGTTGATACAAGTTTTTAAACAGTTGACATATTCTGGGATAATCTTTCGCTGTTAAGAAGGAATTACTGACGTGGGTAGTGATGTCTCTCACATCTTTAATCCTAGCAGAGGCTAGATGATTTCTGAGTTCCAGGCCAGTCTGGTCTACATAGTGAGACCCTGTCTGGGGGGGGGGGGGGGAATAAAAGTGGAGGCTGTGGGGATCACAAGGCATAGTTCCTAAGGCCTGCATTCCAGCACTCAGGAGTGTAGGCCCTGAGCAGCCTGGGCTACATAATGAGACTCCTTCTCAACACTGAAACTGAATCCTACACATTATTGAAGAATGAGCCCTTTAGCACTTCTACGTGTAGGAAGTGGAACATGTTAGAAAATAAAGACTAATGCCCTCATTCATAGTTCTTGTCTGTCTAGTGGGGTTTTTGGCCTTAACCACAGTTAGTTGAATCGAACGCTTTCTGAGGTATGTAGACCCTTTTCTCCCTTGCGATAGAGAACGAGGTGATGATCTTTGTACATATTAGCTTCTATCTGCAGATATCTATTAAAGGTTCATCCCTGGGTTGGAGTTGCTACTTTCTAGTATATGTACATTTACAAAAGGCCAATGTTACTAGCTTTTGGTTCTTTCTCCAATGTTACATAGTGCCCCTATCCAATCATTTTTCTGACACTTTTTTGTTTGTTAAAGCTTTGATTTCGCTAGTCTGTTAGGTAAAAAGTGTTATGACAGTTTAATTTGCATTTTTCCTGCTGTATGTAACTTGCATCTAATGCCATATTTTCCTATTTTCAAATATTACATTTTCTGTGGAGTGTCTCAGTACCATTTTCTGTTGAATGATTGCTTTCCTGATGGCTATGTAAGACTTATAATCCTCTCGAACTGTGTTTATACCAGTTTTCTCTTTTTTATGCCTGGTTTGGATTTGTAGACTTAAGCAATTCATGATTGGAAGGTATCTGTCTTGGTGTTAATGCTTGTAAATCATTTTCCCCCATTCCAATATATTTTCCAAAATCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000046185-Zfp84:NM_023750:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.064
 
                        

				
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=5.4),PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=5.2),PF134651=zf-H2C2_2=WD(100=5.2),PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=5.4),PF134651=zf-H2C2_2=WD(100=5.2),PF134651=zf-H2C2_2=WD(100=5.2),PF134651=zf-H2C2_2=WD(100=5.4)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000032802





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000082957, ENSMUSP00000131131
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr19:37670557-37673693 
HsaINT1047673
Human
(hg19)
chr19:38161458-38164594 
HsaINT0188383
(ZNF781)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr18:47702850-47702856 
BtaINT0165475
(ZNF420)
Chicken
(galGal4)
chr18:31475-31583 
ALTERNATIVE
GgaINT1030522
(ZNF302)
Chicken
(galGal3)
chrUn_random:28965509-28965614 
LOW PSI
GgaINT0003356
([1])
Zebrafish
(danRer10)
chr15:966902-969011 
LOW PSI
DreINT0179592
(zgc:162936)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TGGATAGTGGAGCAAGCAGGA

				
R: 
TCTTCCAACGGGTCTGTCACT

				
Band lengths: 
242-382

			

		

	





	
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"