Special

MmuINT0179603 @ mm9

Intron Retention

Gene
ENSMUSG00000046311 | Zfp62
Description
zinc finger protein 62 [Source:MGI Symbol;Acc:MGI:99662]
Coordinates
chr11:49027092-49032318:+
Coord C1 exon
chr11:49027092-49027144
Coord A exon
chr11:49027145-49028565
Coord C2 exon
chr11:49028566-49032318
Length
1421 bp
Sequences
Splice sites
5' ss Seq
TAAGTAGGT
5' ss Score
4.16
3' ss Seq
TTTTCATTCTTTTGGTCTAGTGT
3' ss Score
8.41
Exon sequences
Seq C1 exon
GTGAAGAAACTGCTGTACAAAGAAGTTAAATAGCTATCCCAAAGGTCATATAA
Seq A exon
GTAGGTATTTGAACCTAGTTGGTATTCTAGTCATTTTCTGGTCTGTGTGAGAGATTGGGTTTAATATTTCACAGATAGCAGAGTCCACTACAGAGGTTGGAGTTCCTTATTTAAAACAACAGTATTTACATATGACCTTTACACATCATCCTGTGTACTTGAAATTATTTTCAAATTACTTGCAGTGCCTAAAAGCAGTGTGAATCTTTATTTCGTTGTATTATTTAGAGAATAATGATAAACATTAAAAGCTGTATATGTTCAGCACAAATGTAACTTTGTTTTTCTGGTATTTTGGGTCCATGGTTGGCTGAATCTGTAAATGCAGAACCTGCCGCTGTGAAGGGCCAACTACTCTCCTCAGTGGCTTGAGGTGTTGCTGTCTTGTTTTAGCATCCGTGAGACAAAGATCTTATGCCATAGTTCAGGCTGGCCTGGAACATGCAGTAACCTTCCTGCCTCAGCCTCCAAAGTGCAAGAATAATAAGATTGAGCCATTACACTTTGCTATTTGTAAGCTTTGACATTCTATATGACTAATTGATTCATAAATAGGAATGAAAACTTTATTCCTTGGCAGGCTGGAGCATGTTTCTACCATGTAAGTTCTTCCATGATTAGCCACTTTCCAAAGAGTGTTTTCCTTACACAGAAAAGTCAAGAAGGCCAAATTACGGTATAGTAGCTTTAGGTTTCTTTGTTTCTCATTTCTTGGTCACTGTCCTCATCATCTTATAACTGCAACTCCCTGCCTGATTCCTCTTCTACGGTCCTGACTTATCTTCCTTTTCAGTTTTTCCTGCTCTCTCCTGATTATGTGTAACTTTTCAAAGAAAAAATTAACATCTTTGTTGTTCTAACTTTTTTCTGTCATGTTTTTCAGAGACTTCTTTTTTCTTGTTTTTCTATGAGGTGACATTGAAACTGATTGGTATTGGCTGTGGTTTTGTGCATCAGTTGAACCCATTTTTATGGTACCTTCTGGACTCTTGTTTTAACAGTAGTTCTAAAGGTATTGAAATCTTATTAATGTCCCCCATCATAATTCCAGTAATTAAAATGGTACTGGAAGGGCTGGAGAGATGACTTAGCAGTTAAGAGCATTTGATGCTCTTGCAGAGGACCTGGGTCCAGTTCCCAACACCCTATGATCACACCCAACCATCCATGCTAACTCCAGTTCCAGAGGGATCTGACTACCTCTTCTGAACTCAATGGGCACCAGACATGTGCATGGTGCACATTCCTCCAAGAAAGCAAAAACACTCAAAAAAATTTAAAGATTATTTTTTAAATGGTACCTGCCACATATTAAAAAGCAAATATCTGACAAATGGATAAGTTAATTTTGTTATTTGCTGTTGTTACTCATTCAGGGTTTTTTCCTAAATAAACATGTCATTTTCATTCTTTTGGTCTAG
Seq C2 exon
TGTCATATTTGAAGACAACCATGGAGGATGAGGAGTCGTCTAAAAAGAATGAAAATGATTCAAATGCAGACTCTCAGTGCCCAAGTGTGGGATTTTTTCATAAGGATCATATGCAGAAATCTAAGACCGGTGACACTTGTGACTTGTTTCCTAAATGGAAAATACTGAAGGAAGGCAAAAGTAGTATCAGAGAAATGATTGACACACATACAAACGCAGCAAATATAAAACTAGAGCAGGATGATGAGACATCTGAGAAAAGTTTCTACCCAAGTACAAATACAATGCACCAGACTATCCCCACAGAACCAAATTGTACTAAACAAGGTGAGCACACAGAGAACATTAATGGAAACGTACACCCTGCTCATATTGCTGATAAGAAATTACATAAGTGTGATGAGTGTGGAAAATCCTTCAAATACAATTCTCGTCTTGTTCAACATAAAATTATGCACACTGGAGAAAAGCGCTACGAGTGTGATGACTGTAGGGGGACTTTTCGGAGTAGCTCCAGTCTTCGAGTCCACAAGCGCATCCATACTGGGGAAAAGCCCTATAAGTGTGATGAGTGTGGCAAAGCCTACATGTCCTACTCTAGCCTTATAAACCACAAAAGCACTCATTCTGGGGAGAAGAACTGCAAATGTGACGAATGTGGAAAATCCTTCAATTATAGTTCTGTTCTGGACCAGCATAAAAGGATCCACACCGGAGAGAAGCCCTATGAATGTGGTGAGTGTGGAAAGGCCTTCAGAAACAGTTCTGGTTTGAGAGTCCACAAAAGGATCCACACAGGGGAGAAGCCCTATGAATGTGATACCTGTGGGAAAACCTTCAGTAATAGTTCTGGCCTGAGGGTCCACAAAAGGATCCATACAGGTGAGAAACCCTATGAATGTGATGAATGTGGGAAGGCATTCATTACTTGCAGAACACTTCTAAATCATAAAAGCATCCACTTTGGTGATAAACCTTATAAATGTGATGAGTGTGAAAAATCTTTTAATTACAGCTCTCTCCTCATTCAGCATAAAGTCATCCACACTGGTGAGAAACCTTATGAATGTGATGAATGTGGGAAGGCCTTCAGGAACAGCTCAGGCCTTATAGTGCATAAAAGGATCCACACAGGAGAGAAACCTTACAAGTGTGATATCTGTGGCAAAGCATTCAGCTATAGTTCAGGCCTTGCAGTCCATAAAAGCATTCATCCTGGAAAGAAAGCCCATGAATGTAAAGACTGTGGCAAGTCCTTTAGTTATAACTCACTTCTTCTTCAGCATAAGACCATTCATACTGGAGAAAGACCTTATGTATGTGATGTGTGTGGCAAAACGTTCAGGAACAATTCAGGTCTCAAAGTTCATCGGAGACTCCATACTGGGGAAAAACCATATAAGTGTGATGTATGTGGGAAGGCCTATATCTCACGCTCAAGCCTTAAAAATCACAAAGGAATCCACATGGGGGAGAAGCCCTATAAATGCAGCTATTGTGAGAAATCTTTCAACTACAGTTCTGCCCTTGAACAACATAAAAGGATTCATACAAGGGAGAAGCCCTTTGGGTGTGATGAGTGTGGAAAAGCCTTCAGAAACAATTCAGGCCTTAAAGTACATAAGCGAATTCACACAGGGGAGAGACCTTACAAATGTGAAGAATGTGGAAAAGCCTACATCTCACTCTCAAGCCTTATAAATCATAAAAGTGTACACCCTGGGGAAAAGCCCTTTAAGTGTGATGAGTGTGAGAAAGCCTTCATCACATACAGAACACTTCTAAACCACAAAAAAATTCATCTTGGAGAAAAGCCCTATAAATGCGATGTGTGTGAGAAATCTTTTAACTACACCTCACTCCTTTCTCAACACAAAAGAGTTCATACTAGAGAGAAACCCTTTGAATGTGACAGGTGTGAGAAGGTCTTCAGAAACAACTCAAGCCTTAAAGTGCATAAAAGAATACACACTGGGGAGAAGCCCTATGAGTGTGACATATGTGGAAAAGCCTACATCTCACACTCAAGCCTTATTAACCATAAAAGTACACACCCTGGCAAGACGTCCTATACATGTGATGAATGCGGAAAAGCATTTTTCTCAAGCAGAACTCTTATAAGCCATAAGAGAGTCCATCTTGGGGAAAAGCCCTTCAAGTGTGTTGAGTGTGGGAAGTCGTTCAGCTACAGCTCACTTCTTTCCCAACACAAGAGGATCCACACAGGGGAGAAACCTTATGTATGTGATTGGTGTGGGAAGGCATTCAGGAACAGCTCAGGCCTCACAGTACATAAAAGGATCCACACAGGAGAGAAACCCTATGGGTGTGATGAATGTGAAAAGGCATACATTTCACACTCAAGTCTTATTAATCATAAAAGTGTCCACCGTGGAAAGCAGCCCTATAATTGTGAGTGTGGGAAATCTTTCAATTACAGATCTGTCCTTGACCAACATAAAAGAATCCACACTGGAAAAAAGCCATATCGATGTAATGATTGTGGGAAGGCATTTAATATCAGGTCAAACCTTACCAAGCACAAAAGAATCCATACAGGAGAGGAATCTTTAAATATGGCAAATATGGAAAGTCATAGTGGCACATTCCAGAAGATGATCTACTATGAGGGAGGGAATTCTCTGGATGGGACCAGAATGCAGATGCCTGTGTGGGAGGCAGAGCATGCCAAGTCTCAAAGAAATCAAATAGAAGAAAAACTTTATGAATATAACAATTTCTGAGGTCCTTAGTCATGGTTTATAATTTTCATAGTATGAGTGAAAGAAAGAATTCTAAGTGCTCATGAACAATTCTATGTGATTCAGTTATAGCAAGAACAGTTTTAGTGTCAAAATAGTCGAACACTTTAGGACTATAAAATACCACTGGATTTAAAGCCTTTAAAAGTGGCGGAACATTTAAAAAATATAATCTGGACATAAAACATAAAGATAAGGGTCTTTAGTTAGAAATCATTCACTACAAAGATCCTATTTGGATAAATAAGTGAATAAGAATGTATAAAGTTGGTATAATTTTGAGCTCTATACTTCAGTCAGTGGAAAAAAGATCCAAGAAGGGCCTCCAACAGGCAAATTCAGGGAGAGGATGGTTTCAGGGAATATCAGTTTATTAGTGGGTCATGAATTATAGACTTAACAGTAATGGTTTGTGGTAGGAAGATCACAACTTCTGAAACACTTTGGATGTCCTAGGAAAAGAAAAGGCATAATCTGTGACATAATCACTTCAAATGCATATTAGTTGAAATATACTATTAATTGAACTGGTAAGACTAAAGTTTCAAATGAACTCCCTTAATAGATAATATATATGGTAAATGAAAACCTGGAAGGTGACATTCACATATACTGAAAGAATGGAAAGGATTTTAGTATCTTCAGTTAAGTAATGGAACACATCTTCAACATGAATTTGCACCTTACAGAAAACTTTCAGGGAATCCTATGAATAAAAAAAAAATGTTTCAAAGGATGGCTTTTTATTACAAGAGCTAAATAAGTACCAGTAATTAAGAAGAAATTCATGTTTTAAAAACAATACTTTGTTTCAGAAAGCATTGTAAAAATGTTATGTACGACATACATGTGTATATTGTCTGTAGTAAAATATGAATATGTTCAAAACTCACTTGGCCATAAAGGCCAAATAGTTATGGCAAGATAAGGGGTAAAAACAATAAATGCCTCAAATGTAAATAGGCTGTGACTTGTTTTAGATGGACAAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000046311-Zfp62:NM_009562:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact





	

	
5' UTR





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
NA

							
A:
NA

							
C2:
PF134651=zf-H2C2_2=WD(100=3.4),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.6),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.8),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.8),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=2.8),PF134651=zf-H2C2_2=WD(100=2.8)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000056226, ENSMUSP00000104820, ENSMUSP00000104821, ENSMUSP00000114147, ENSMUSP00000115576, ENSMUSP00000115849, ENSMUSP00000116045, ENSMUSP00000117774, ENSMUSP00000121132
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr5:180851494-180851987 
ALTERNATIVE
HsaINT0185535
(ZFP62)
Human
(hg19)
chr5:180278494-180278987 
ALTERNATIVE
HsaINT0185535
(ZFP62)
Rat
(rn6)
chr10:34489446-34490116 
Cow
(bosTau6)
chr7:41406959-41407724 
Chicken
(galGal4)
chrLGE22C19W28_JH375242_random:121580-121624 
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GTGAAGAAACTGCTGTACAAAGA

				
R: 
TGTGGGGATAGTCTGGTGCAT

				
Band lengths: 
358-1779

			

		

	





	
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"