Special

MmuINT0180854 @ mm9

Intron Retention

Gene
ENSMUSG00000054715 | Zscan22
Description
zinc finger and SCAN domain containing 22 [Source:MGI Symbol;Acc:MGI:2443312]
Coordinates
chr7:13488950-13493588:+
Coord C1 exon
chr7:13488950-13489434
Coord A exon
chr7:13489435-13491582
Coord C2 exon
chr7:13491583-13493588
Length
2148 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
GCTTTTTGATTTAATTCCAGGAT
3' ss Score
7.16
Exon sequences
Seq C1 exon
ATGGTGATGAAGCTCTAACGTTTCTTCAGCCCCAATTCTGAGGCTTGAGTCGTCCCTGTGACTCACTGAATTCTTCTGCCCAATGGCCATCCCCAAGAGCCCTCTGAGCCCAGTACTCTGGGAACAGGATAGCTTCCTTCAGGTGAAGGTGAAAGAGGAGGAAGAAGCTAGCGACTCCCCGAGCCAGGAATCCAGCCCTAGCTTTACTGCCCACCCTGAGGCTGCACGATTGCGCTTCAGGCACTTCCGCTATGAGGAGGCATCCAGCCCTCATCAGGCGCTAGCCCAACTGCGAGAGCTATGTTGCCAGTGGCTGAGGCCAGAGTCGTCCTCCAAAGAACAGATGCTGGAGTTGCTGGTGCTGGAGCAGTTCCTGGGTGCGCTGCCCCCTGAGATCCAGGCCTGGGTGGGTGCTCAGTGCCCAAAGAGTGGAAAGGAGGCTGCCGTTCTGGTGGAGGATATGACTCAACTGCTGGACAGGAGAG
Seq A exon
GTAAGAAGGAGCAGCAGGCAGGTGGTCACTGATAGATAGCTCTGGCTACAATGGCAAGCTCTAGTTCAGGATTGCTCCGGTACTCATTATCACGTTTGTACCTTAGCCATGGTTACAAGTGACCAAATCCCAAGCGATTAAGGTTAAGGGGCTTAGATATAGCAGTATCCAGAAGATACATCACAACACTGAAGGAATGAGCGCTTGACACTGAGCTGGCTTGTTCTTACCCCCTTACATTTTGTATTTCCATTAGATTTGGATTTTTCTGCGTTAGTTTTATTTGTTTTTTAAAAAACAAGGTCTTTTGTGTACCCAGGCTTACCTCAGATTTGCTCCATAGCTGAAATGACCTTGAACTCCTGATCCTTCTGCCTCCACCTCCCAAATGCTGGGGTTACAGGGATGTACCACTACACCCAGCTTTAAGTGGTATGGGAGTCAAACCCAGGGCTTTCATGCATGCATGTAAGTAAGCACTCTGCCTGCTGAGTTACATCCCTGGCTTATGATCATCCCCCTAAGGTGAGCAAAGACAAACCATCAGTCCCTGACTTGTTTCTTACCTGAGCTGACAAGGGGAAACAGCAGGCAGTGTCTATCGTGAGCCTCACTGCCAGTCATATCTTCTGTTTGCCTTTGGCCAGCAAGTCCCAGGAACTGATAGTAAGCCTGGGGCACTTCCCCCAAGGAAGTGTACGATACTGACCCAGAAGAAAGGACTGGATCCCTTGAGAGGGTGGGGAAAGAAATAAGTATCCCCGTGTGTGTACTCTTGTAGCCTTTCCTATGCTAGCCTATAGGATCTGGGGGTCAGGAGGGGTTAGATGCCCTGAGCTGGAATGGTCACTTGTCATTCAAGGAAACCCACACCTATGTCCCAGCCCGGAGAAGATTGGTAGGATGCAAGAACCCAAGCACTGTACAGTCTAGACCAGAAGCTTCCAGAGCAAGTCCCAATCTGGCTGCAAGCTAACTAATAAGAACAAATGCCTCAGCACATCTACTAATCCTGTGATTTGTTTGTTTGTTTATTGAGGAGGGGTCTTACTATGTAGCTCTTGGATTGGAACTACTGTGTAGTACTATGGCTTGGAACAAGCTATGTAGACTAGGCTAGCCTTGAACTCAGATTCTCTTGGCCCCATCTCCCAAGTGCTGCGACAAAAGGCATGCATGACAGTGCCAAGCCAATCATGTGATCTTATACCAGGGACTCAGCACCTCAGTCTCTCATCTACAGTGGAGCCACTGAGTATCTCCTGGAATGGAAATGAGTCAGTGGAAGTTACACACTGCACTTGGAATGTAGCACATAACAAAACCCTGATATAAACCAGCAACCCTGGCAGGCAAGTACTAGCACAAACTGAGGTCCATATGATGGCAGTGTTGTTTAAGGATTGACCACTTGGCAGCTCAAAGTATGGGGTTAGAGCACTGTGAGTCCACTCAGCCCAACTGTACACTAGAACAATAACTATTGCATCCTTCTCTGACTCATCCCTAGGATTCATCTGTAAATGTTGCCAGATGTAGTATGGTCAGATACCCTTTGTACCTATGAAGAACTGGTCAGTGCAGGTGTGCCTCTCCCTCCTGTGACTTGGAGCTTCAGAAGCAGATCACCCACTCTCCACAATGTCTAAATTCTGCTGTGAGAAATGACAGTCACAAGCATCTCGACTGATCTCATTTGGCCACTATTCCCAAAGACAGCTGCAGCGTTTAAGGGACAGAGCCTAGACTCCCAGTGGTCTACCCGCGACTGCAGGGAGGAGATGCACAGGTGCCTGACAAGGACCGGCTCCCTTCACTCTTGTTTCATTCTGATCTTGTCCACATGAAAGCTTTTCCTTTTGGCGTTTTAGCCAGATCAGGAGCCTTGGCAAAATGGATGGTTTGGTTGAGGGTGGAAAAAATCAGAATCACGAGGCAGTTTAAGGTCATATAAGAGGACAAGCCTGAATTCTTTTTCTTACCCAAGACCCCAAAGGGGAAACTTCCTTTTGGAAATGAGGCCATGAGAGAAGAGTGATCCACATCTTCCCTTTCAGAGTAAATGAGCTGGGCCTGAAGCAGATGAAGAGGCTTATGTGGTGATCCATGGTGAAAAAAATAACAGAGTGCTTTTTGATTTAATTCCAG
Seq C2 exon
GATGGGAGCCAGGAGTGGAACGTGAAGAGGCAAGTTGCAAACAGAGCAATACAGATGAATTGGAGCCACCAAAAATGGCGACTGAAACTGTCATGGGAAGCGTTTTGCCAAAATCTACCCTTGCCCACACTTGTAAACCTGAGAGCCACTCAGAGAGCCAGCCAGAATTCCTAGGAGCACTCTGGATGAAGTCTACTGCCCAAGAGATGGATTTCAGAAAAGCTCTGGGGCCTCACATGGATGCCCCCAAAGACCAGCCTGGCCATGAGTCTAACACCTCAGGAAACGGTTCCAACATGTGGCCCAACTTCCCTTCCCAAGACAAGGCTTCTTCAGAGGAGAAATTTGGCCCATTACTTGATAATGAGACAGTGCCTCCAGATACTTGCTCAGAGAAGAAATCCTCCAAGGATAGTGAATGTTTGAAAACATTCCAGAACACTTCAGCTCTGGAGGCCCACCAGAAGAGCCACTCTCAGAAGACGCCCTATGCCTGTACTGAGTGTGGGAAGGTATTCAGTCGGAGCACCCACCTTGTCCAACACCAGGTTGTTCACACAGGAGCAAAGCCCCATGCGTGTAAAGAGTGTGGTAAAGCCTTCAGTCGCGTTGCCCACCTGACACAGCACCTGAGGATTCATACTGGGGAGAAGCCTTATAAATGTGAGGAATGTGGTAAAACCTTCAGCCGCAGCACCCACCTCACGCAGCACCAGCGAGTACACACAGGCGAGCGGCCCTACGAGTGTGATACTTGCGGCAAAGCCTTCAGCCAGAGCACCCACCTGACACAGCACCAGCGCATCCACACCGGGGAGAAGCCCTACAGGTGTGATGTGTGTGGGAAAGCCTTCAGTGACTGTTCAGCTCTGGTCCGGCACCTGAGAGTCCACTCTGGAGAGAAGCCTTATCAATGTAAGGACTGCCCGAAGGCCTTCGCACAAAGCTCCTCCCTCATTGAGCACCAGCGCACTCACACAGGTGAAAAGCCTTATAAATGCAGTGACTGTGGGAAAGCTTTTAGCCGCAGCTCAGCTCTCATGGTGCACCTAAAGATCCATATCACCGTGACTCGAAGCACCCCTTAGAGTACAGCACAGCCTCCCTGAGAGGATTGACATCTAAGAAATCTGATAATTGTGCTACCCAGTGTCTAAGGGGTTATCTGGGAACACCTCTACATTTGAGGTCCCAGAGGAAATCCCCTAATGAACACGGATTCAGACCAATTGGTGAAGCTTCTAGAAGCTTCCTACTGCCCTCTGTATCCCACTCAGGCTGGTCCCAGAGAGAAGATACTAAACTGATGATCTGCATTATTTCTTGGAACCAGAGCAAGTAAAGCCAGGTGTCTTTCCAGGCTCAGATGCCCCAAGATCCTCGAGGCAGGAAGACCCCAAGCTTCAGGTTCTCACATAGTTACTGTTCTTGCCGGTTCCTTGCTGGTCAGCCTAGAATGGCCCACTCTGTGCCTTCGTACCTGCTTCCCCACAATATTACTTTATGCCTAACTCCAAGACAGACTTGGGAGGCTGCCTCTCCATGCTATCCCTCTCATGTTCTCCCTGCTTTAATCCACAGTGTCTGTCTTCTCCTCCCACGTCTTCCTTCCACATCTCAGGCTCCAGCCCTGTGGATTCACCGCAGGCTCATCTCTAATCTAGCCCCTCCTGCAGTATCACCTCCTGTGAGCTCACCTTGGGCCTCCCACTGGATTTTTATCAGGGCTCTCCTTTCTCACCTCTTCCTGCCTTCATTCCATCCCCACCCACTTTCTTCCTGGCGCATCTCTTTCTGCTACCCAGATCACAGTGAATCATTCCATGACACAATATGTTGTCAGTGAGTCACCTCTTCAACAAACAAGCATGTCAGGATATATGTCATTTTGGTCCAAGCAATTACTCTAGGTATCCTGAAATGTTGTCAAAGGAATGTTGTCATCTGTCTTTGAGCACAGTGTGTGAAAGTGATTTCAAAGTACTGGTCTGCCTGTTGGGCAAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054715-Zscan22:NM_001001447:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.252 A=NA C2=0.436
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0202312=SCAN=PU(96.8=68.1)

							
A:
NA

							
C2:
PF134651=zf-H2C2_2=WD(100=7.7),PF134651=zf-H2C2_2=WD(100=7.7),PF0013017=C1_1=WD(100=16.0),PF134651=zf-H2C2_2=WD(100=7.7),PF134651=zf-H2C2_2=WD(100=7.7),PF134651=zf-H2C2_2=WD(100=7.7),PF134651=zf-H2C2_2=WD(100=7.7),PF134651=zf-H2C2_2=WD(100=7.7)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000057651





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000112684, ENSMUSP00000113314, ENSMUSP00000113486
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr19:58335206-58338253 
ALTERNATIVE
HsaINT0188824
(ZSCAN22)
Human
(hg19)
chr19:58846572-58849619 
ALTERNATIVE
HsaINT0188824
(ZSCAN22)
Rat
(rn6)
chr1:65678709-65681040 
ALTERNATIVE
RnoINT0169481
(Zscan22)
Cow
(bosTau6)
chr25:36926535-36926822 
LOW PSI
BtaINT0166404
(ZSCAN21)
Chicken
(galGal4)
chrUn_JH376407:90010-90208 
Chicken
(galGal3)
chrUn_random:54548964-54549331 
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
No suggested primer sequences

				
R: 
No suggested primer sequences

				
Band lengths: 

			

		

	





	
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"