Special

MmuINT0178443 @ mm9

Intron Retention

Gene
ENSMUSG00000022335 | Zfat
Description
zinc finger and AT hook domain containing [Source:MGI Symbol;Acc:MGI:2681865]
Coordinates
chr15:67997315-68000426:-
Coord C1 exon
chr15:68000277-68000426
Coord A exon
chr15:67997489-68000276
Coord C2 exon
chr15:67997315-67997488
Length
2788 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
TATCCATTTCTCGTTGGTAGGTG
3' ss Score
8.38
Exon sequences
Seq C1 exon
AGGTCTCCATGAATACCATTTCTGAGGTTCTTGGGAGAAGAGTCCAGCTCAAAGGGCTAATTGGAAAGCGAGCCATGAAGTGTCCATATTGTGATTTCTATTTCATGAAGAATGGCTCAGACCTTCAGCGGCACATCTGGGCTCATGAGG
Seq A exon
GTGAGTTGTCTTTCCATCTGGAACATCTATTTAATTTTATTCTGTGTACATTATTTTGGGATTACATAAAGAGGAAGTTTGCCTTTGCATACCCTGCTGTTGTGATTTCTTTAGCATGTAGATATATGACTCTAGCCAATAGAGATCAGAGATTAAGACCATGACTTTAATTGCAGTTGCAGTTGTGGTTAATAGAGGTGTTTCCCATCTTCTAGCTCTGGATATAACTGTAGTGAATTAGACCACTGTCCTTTGCTTACGGGTTAACTAGTGTCCTGAGAACAGGAAAGCCCATATGTTCTCTGGGCAGTTGCAGTGCCCACTACTCTGCTCTGTATGTAACTAGCATTGAAGAACAATGGAACTATGAAGGATTGGCAGTAAAACGGGCTGCTGGAGGCTTGACATTTTGGCAGTGTGGAGCGTCACTGTTTATACTGTAGAGAGAGGATTGGAAAGTGGAAGGGTTGAGTAGAAAGGTCGCAGTCCAGAGAAGCATAGGGGCTGCTGTGCTCTGGGGGCTTGGCCAGGACTGGAAGTGTTGGACAGCTACTTGCAAAGATTCTGACAAGCTAGGAGTCAAGGGTCTTCTGTCATCGACCTCATTCCTTGCCGCTAGAGGAGAATGTTGCCCTCCTCAGAATGAGGAAGGTGCAAGTGGCAAAGTGCCCTGCTAGTCCTGCGTAATAGTTCCTTCCTGCTTGTCGGGAGCTTGACCACTATAGGCAGGACTGTAGGGTCAGAGGAAGATGGATGGCCAAGTATTTTGCATAACATACTATCAGTGGCAGGGCTCAGGGGAGGAGCTGATGGGCAGAGAGTCAGTGAAGAGAGGAGGCAGTGGACCTGAGGTGCAGTGCTGGAACTGAAAGGTGCTTTCTTGTGTGCCAGCACTTAGTAAGCACTGTGGGCCCAGTGTGTACTTTCGGCTTGCTCATGGTACGCTAGTTAGTGCATTCAGGGACTAGCAAGCCAGGTTAGTTTTACCAGTGAGGAACACGAGGCACAGAACGCTATGAAATGCTCGTGTTGTACAGCCAAAAAGTAGTGGGAACTGGGATTTGGACCCATGCTACATGATTCTAAAGCCCTGTTCTTTACATCTTTACTGACTCGCACTAAGAGAAAGCGATACCTCCCATGTGGAGGCAAGAAAGGAGGAGTTGACAGTGGTGACGAGATGAATACCTATATGTCATTTTCTGAGGGCACTGAAGGAAGTCATTGCTAGGAGTTTTCTCAGTAGAGAAGGAGGCAGAAGCCTTTGTGTGGAGATTGGTTTAGGATGGTGCTCAGGGGAGTCGTCTGGGAGTGGTCAGAGACAGACCACGAACCTGACGCTGATGCAAATCCAGGGAGATGGCAGCCTGAGGATTATAAATCTGTTCCCCTGGGGGATAATGCTTGCATGGCAGACAGAGGTCTGGAGTGGGAGAGCGTGGTTCAGTCTTTCCTTTCTTTGTATGTGACGCAGGATGGGACAAATATTCCATCTTCTGGTCACTTTTCCATGAAACACAATTATAAACTGCCTTGAGATTTGCTGCAGGCATCAGTGAGATGGTCTCCTACATTCCTCAGAAGAAGACCCTGTGTATGTCCAGGCTTAATGTATAGCCAACACTATGCATTCAAGGACACGGGGTGTCAGTATTCCATACCAGGCTTAATGTATAGCCAACACTATGCATTCACAGGACACGGGTGTCAGTATTCCACATTGAACTTCTGGAAGAAATCTCTCAATTTGAAAACCTTCTGAATTCTGAGAAAGGTTTAGGAAACGAAAGGCTGCAGTTTTAGGATGGAGTGTTCATGGCCTGCTCTTTTTCACTTGTCTATGAATTTCTTTATAATGATGGAACTGTAAAGGATAAAGAAAAGCCTACTTACCCACATTACATTATTCGCGAGTCTTTGGAGCTAATCACTGCAATTGCACTGTAAGTATTCTTTCTCCCAGCTCACTCCCAAAATAAAACATGGAAAAAGAGCAGCAGTAGGCAAATGCAAAAGATAAGCATGAAGACTAACAAGAAGGGGCAACATAAGATAAGTCTGGGGACTCTCCATAGTCATAGGTGTTGATCACACGTGAGGAACTTCATTCACACGGTGGGCAGGTGCTCAGAGAGTCTAACAGTTCAAAGAGGTCAAGAAATGCATTTGAGATGAACCACGACAGCAGTTCTCACACTGGCTGGGTGGGGGAAAGCAATACAAGTGGAGTAGGCACAATAGCTTGGGAATAGTTACATGTGAGTCATGCAGAATGTCCAGTGTTTTGTGCTTCTGTTTATGTTATGAATGGGAATATTCTTCCAGACTTGACCTGAGTGCCTGATCCTATTGATTTTTGCAAAGAATGACGTGGCCTATAATTTTATTTAGTTTAACTCAGTTGAGTTGGATTTAATGACTGCTTTGTAAGTTGGGCAGGGTGTCTGTCTTCAGGGAGTTACCAGACTGTAGGGAGAGCAGAGGTGATCAAATCACTGTGGTATGCAAGAGCATTTTGGCAGGAGGGAGCTGTAGGATTACAGAATGCTGATAGGCAGCTAGAACTGTCCTGAAGCCGAGGCTTGGGAACCCTGACTTCTGCGGTATTTCTGTAAGGCGGAACAAGATGAGGTCGGCCAGACATGAGGTGTGCGGACACGTTGGGAGTAAGCAAGTATACTGCTCTGTTCAGTTGGATGTTTTATATGGTGTGAACTGTTCTTTGGGATCCCCACCCATGTTTGCACAGACACGTGTAAATGTACAGCTATCCATTTCTCGTTGGTAG
Seq C2 exon
GTGTGAAGCCCTTCAAGTGTTCTCTGTGTGAATATGCAACTCGTAGCAAGAGCAACCTCAAAGCTCATATGAATCGTCACAGCACTGAGAAGACCCACCTCTGTGACATGTGTGGCAAGAAATTCAAATCCAAAGGGACACTGAAAAGTCATAAGCTCCTTCACACGTCTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022335-Zfat:NM_198644:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.020 A=NA C2=0.068
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF134651=zf-H2C2_2=PU(38.5=19.6)

							
A:
NA

							
C2:
PF134651=zf-H2C2_2=PD(57.7=25.4),PF134651=zf-H2C2_2=WD(100=44.1)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000125257





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000124974, ENSMUSP00000125732
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr8:134584006-134588245 
LOW PSI
HsaINT0185389
(ZFAT)
Human
(hg19)
chr8:135596249-135600488 
LOW PSI
HsaINT0185389
(ZFAT)
Rat
(rn6)
chr7:109119134-109121814 
LOW PSI
RnoINT0167649
(Zfat)
Cow
(bosTau6)
chr14:8235102-8236706 
LOW PSI
BtaINT0164313
(ZFAT)
Chicken
(galGal4)
chr2:142157629-142159641 
ALTERNATIVE
GgaINT0101919
(ZFAT)
Chicken
(galGal3)
chr2:148262848-148264860 
LOW PSI
GgaINT0101919
(ZFAT)
Zebrafish
(danRer10)
chr16:25436346-25437880 
LOW PSI
DreINT0177877
(zfat)
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"