Special

MmuINT0180019 @ mm9

Intron Retention

Gene
ENSMUSG00000061371 | Zfp873
Description
zinc finger protein 873 [Source:MGI Symbol;Acc:MGI:3040689]
Coordinates
chr10:81521115-81524331:+
Coord C1 exon
chr10:81521115-81521241
Coord A exon
chr10:81521242-81522261
Coord C2 exon
chr10:81522262-81524331
Length
1020 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
TGTTATTTCTTCTTTAATAGATA
3' ss Score
8.81
Exon sequences
Seq C1 exon
GCTGCGGTGACCTATGAAGATGTGCATGTGAACTTCACTCATGAAGAATGGGCTTTGCTGGATTCTTCCCAGAAGAGTCTCTACAAAGATGTGATGCTGGAAACGTGCAGGAACCTCACTGCTATAG
Seq A exon
GTAAGATGTAAAGAAGAGGACAAGTGTTTCTTGGTTATTGGTGCACCTCTGTGATTTCTCTTGTGACAGAGGAAGAATGTGGTAAATATAAATACTCAGACATGGTTCTCATGTTCACCAGAGACTAACTTAAAATTTGCACAGTATCAAATAATACATCATAAATTTTGTGGTACTGTATTTTAGGGTACAGATTGGAAGACCACAATATTGAAGAACACTGTCAAAGTTCTAGAAGACCTGGGAGGTAATTTTTATGTGCAAGCTAATACAAATGCATCACTGTAGACATTTTAATGTACCTTGAAGTTTTAATGAAAATCAACAGTGTGAACAGCTTTAAGTATCCTGATGATTAGTGAATTCTCAAAAGACCATGTACTTGGATTTCAGGTAGCTGGCCAGTGTTTGCAAGGCATTCCTTTAAGGAAAAGGAGAAATAATATCTTAGCCAGGCAGTGGTGGTGCATGCCTTTAAATCACAGCACTTGGGAGGCAGAGGCAGGTGGATTTCTGATTTTGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCCGGGCTAAACAGAGAAAACCTGTCTCAAAAAACCAAAAAGAGGAGAGAGAGAGAAAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGCGCAAGAGCGAGAGAGTGAGAGAGCGAGAGAGAGAGTGAGAGGATATTTTAACACATGACACCATTTTAGTCAGGAGAGCTGTGTTGTAGAACTGTAAGTCCGTTTGGTTTCATCGTATTCGAGTATCAGAGAAAGCACTGATTAGGGGACCAGTATATGTCTTTAATAACCAAGTCGCTCATAGTAAAGCTCGTGCTACTCATACCCTTACAGTGACTTTCCGAAGTTTAGTGAGAGGGAATAGCTTATGGGAAGCAAGCAGGTGGTTGTCACTGGAGAAGCATTAACCCCTGTAGCACATATGTATGGGGGAAGCAGTTCATATGTGTGAATGCAGTGTGGAAAGCTTTTGTTATTTCTTCTTTAATAG
Seq C2 exon
ATACATTTGTAATTGTGGATACAAGCCCTGTGAGAATGAAGACCATGGAAAGAAGCAATGTTCCTTTGCATGCAACAGTTTTCTTCAAATGTATGAAAGAATCTACAATGAAGAGAAAGCCTATGAATGTAATCAATACAGTAAAGCCTTTGTAAATTTCCATAGTCTTCCACAACATGCAAAAAATCACCCTAGAGAACAACCGTATGAATGTAATCACTGTGGTAAAGCCTATGTGAGTCCCAGTTCTCAGATACACAAAAGAAGTCATGTTGGAGAGAAACCTTATGAATGTTCGAAGTGTGGTAAAGCCTTTGAAAATGACAATCATCTTCAAAATCGTGAAAAACATCATACTCTTGAGAAACTCTTTGAGTGTAGTCAATGTGGAAAAGCCTTTGCAAGTCGCAGTTATCTTCCAATACACAGAAGAATTCATACTGGAGAGAAACCATATGAATGTACTCAATGCGGTAAAGCATTTACAAGTCGCAGTTATCTCAAAATTCATAAAAGTGTTCATACTGGAGAGAAACCGTATGAATGTAATCAGTGTAGTAAAGCCTTTGCAAATTTCTATAGTCTTCGACAACATGAAAAATACCATACTCGAGAAAAACCTTATGAGTGTAGTCATTGTAGTAAAGCCTTTCCAAGTCCCAGTTCTCTTCAAGTACATGAAAGAACTCATACTGGTGAGAAACCCTATGATTGCACTGAATGTGGTAAAGCATTTATAAGTCACAGTTCTCTTCAGATACACAAAAGAGTTCATACTGGAGAGAAACCATATGAATGTACTCTATGTGGAAAAGCCTTTGTAAATCGAAGTTATCTTGAAGTACACAAAAGAATTCATACTGGAGAGAAACCCTATGAATGTAGTCAATGCAGTAAAGCCTTTGCAAATTTCCGTAGTCTTCGACAACATGAAAAAAATCATACTAGAGAAAAACCCTATGAGTGTAGTCAGTGCAGTAAAGCCTTTGTAAGTCCTTGTCATCTTCAGATTCACCAAAGAACCCATACAGGAGAGAAACCCTATGATTGCAGTGACTGTGGAAAAGCCTTTACACGGCTCAGTAATCTGCAGGTACACAAAAGAACTCACACGGGACAGAAACCCTATTGTTGCAGTCAGTGTGGGAAAGCCTTTCCGTGTTTCAGTAATCTCCAAATCCATGAAAGAACTCACACTGGAGAGAAGCCCTATGCATGCAATCAGTGTGGGAAAGCCTTCGCAAGTCGTGCTAGTCTTCAATACCATGAAAAACATCACACTGGAGAGAAGCCCTATGGATGTAATCAGTGTGGGAAAGCCTTTGTAAGTCCCAGTCATCTTCAAATACACCAAAGAACTCACACGGGTGAGAAACCCTACGAATGTAGTCAGTGTGGGAAAGCCTTTGCACGTCGCAGTAATCTTCAAATCCATGAAAGAAGTCACACTGGAGAGAAGCCCTATGACTGTAATCAGTGTGGAAAAGCCTTCGCAAGTCGTGCTAGTCTTCAATACCATGAAAAACATCACACTGGAGAGAAGCCCTATGGATGTAGTCAGTGTGGTAAAGGCTTTGCACTTCGCAGTCTTCTTCAAGTACATGAAAGAACGCACACTGGAGAGAAGCCACATCAGTGCACTCAGTGCGGTAAGGCCTTTGTAAGTCGTAGTTATCTGCAAGTACACAGAAGAGCCCATGCGGGAGAAAAGCGGTATGAATGCATTCAGTGTGGCAAAGCCTTTGTATATCTCACTAGTCTCTGTAGTCACAGAAAATTCTGTGCTGGAGAGAAACCCTGTGGCAGTGCTTGATACAAAGATGAATGGCATGGTGAGTAACATAAGGGAACAGACCCGCTTCTGGACCTATGCACTGTAACCTTGTAGCACATTGTTTACTCTCCTGAGAGGTAGTAGTTACATCCCTAGCAGGGTTGAATATATGTCCATCCCAGGCCATGTAGGCGGCCATTCTTCCAGAGTCAGTTATGTAAAGTTTTTACTCTTACATTTAATTTAAATACATTAATGTTTTATGATTCTCCTTCAATAAAGTGCTTAAAGTTACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061371-Zfp873:NM_001024626:2
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=0.037
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.5),PF134651=zf-H2C2_2=WD(100=3.8),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.3)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000100950





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000082807
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
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: 
ATGTGATGCTGGAAACGTGCA

				
R: 
AGGCTTTACCACACTTCGAACA

				
Band lengths: 
353-1373

			

		

	





	
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"