Special

MmuINT0179188 @ mm9

Intron Retention

Gene
ENSMUSG00000048410 | Zfp407
Description
zinc finger protein 407 [Source:MGI Symbol;Acc:MGI:2685179]
Coordinates
chr18:84520292-84524083:-
Coord C1 exon
chr18:84523917-84524083
Coord A exon
chr18:84520376-84523916
Coord C2 exon
chr18:84520292-84520375
Length
3541 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
TCTGTTTATTGTTGCAACAGGCG
3' ss Score
7.05
Exon sequences
Seq C1 exon
GAAATTTACATGCCACTTATGTGATAGAAGTTTCACGGAGAAATGGGCCTTGAACAACCACATGAAACTGCACACGGGAGAAAAGCCTTTTAAGTGCACCTGGCCCACGTGCCACTACTCATTCCTCACAGCATCAGCGATGAAAGACCACTACAGGACGCACACAG
Seq A exon
GTGTGTCACAGCCCTTGTAACTCAGAGACCAGGCCATGGCAGCCCCAGGGGCTTCGGGAGTGTGTGCATTGGTTTTCTTGGTAGAAACCAGTATTTAACATGACTTTTTTTGTAGAGGTTGTGCTAATTGTATTTCAAATTGGTCATGATAATTGTGTATGAAAATATTTTTCATTTCTTCATTTGCAACATTGGTCACTTCAGTATGATTATGTATGTGTGCATGTGTTTAAGCAGTATAGGTTCAAATTTGACAGCTCATTTCCAGAGTTTGTGTTCTAACTTAGCTTCTTAGATGAACCCTTGTCACATGGGCCTATTACACTTTTAAAGAGAACTTGTCTTCTATTTCATTGTAGATATTACCTAAGTACCATAACATTGAAACATACTGAATCTTAGTTTTATGTGCCATTTTCTACATGTAAGCAGTTTTATATCTCTTCTCAATACAAACAGTGTCACAGCCTAGAGTTCCTAAAATGTAGAGGCTAATCTGAATTGAGTTGCCAAATGCTTTTCATAAAATCGTTTTTTAAAAGCTTCCAGTAACATACAATTTACATGAACACATTAGCCATGACCATGTGTGATCTAACTTAGCAGTCCTGAGAGTCTCTCTGGGGAGTGTGGTTCTAAGCCGACTCAGTTGGGGCTTTTCTCAGTGCATGAGCCCTCATGCCCTGTGGCCTTGTCCTCTGTGTGCCACATGCCCTTCATGGTTGCAGCACAGTGGGCCGCATACTTCACTGTGGGCTTGTGTTTAAATACTCAACCTGTATCCCTGTCTGGGACTCGCAGCTATTAATATTTTTGTGGTCTTCTCTTCTCTATGCACTGCCCAGAATATATTCCCTGTAGGAAAAAATAATAAATTTTAATCAACATTCAGAAATGTTCTTCTGATTGTTGTGAATCCTGTATTATTGTTAGAAATTGTAGGTTGAAAGTTCTCCTGAAGCAGTTGTGGGAAGCCCAGACCTCCTTAGCTTCCTTGACAAGGGTGTTGACGATTTAAGGTCTCCAGCCTGCCCTGAGAGATCACTTATATCGAACAGCAGATGAAAAGCCAGTGCAGATGTAATTTATCGTCGGCGTTTCCTTCTAAAGAATAATTGTGGAGACTTGGCCAGATCAATAATATGGATTTTTGTTGTTAGGTCTTGTAGTCTGCACCATAATGAGAGAGAGGGGACAGTGGCTGTTTTCTAATAGAAAATAAAGGATTGGTTTCCATGTCTTTCTACGTTTGAATGCAAAATGGTACACTTGAAACTAATTCAAGTTGCTATTAAAAGAAGTCTTCTATTAAATCTCTGTTGTCATTTAAATATGACATGCTAAAAGAATACCTTCTTGGTTGGAGTAAAATGTTGCATTGAGTTTTATTTCTGAAAATTTTTTCTTCAAAAAAAAAAAAAAACAAACCTCTTGGCTTGTTATTCAACAGTTCCACCCCCCCCTCCACTTCAAAAAAAAAAAGTAAAAATTGAATTTGAAAACAAATCAAGCCACCAAGGTAAATATGACATACAATACATCTGAGACTCACACCCCATATAAAATCCTACACATCAAAAATCAAGGTCATTGATGTACCTACAGTTAAATAACCCGGAAAATGAATAATTTCCCTTTTCATGTTTATACACTATAAAGTAGAAAGTGCATAGACCTTAACATGTACAGCATGTACACGTGTACAAAATGTTAAATTCTGACATTTCCCCCTGTGTTTATTAACACGCTTATTTTGCATGGAAGAAATAGGTCACAAAGATTTCATAAATGGAATCTATTCCTCTGCCTACACTGTGGGATGCTCTCTCCCCATTACCCATCGCTACTCCCCTCACACATGCGTGTGCACATGTGCACAGGCACACACATTTCTACCCTGTAGTCCTTCTGTTCCTGCACATGTGTAAGAGCAGCTGTTCTCTGTCAGTGCACACACAACTGTCTGCAGAACTGGTAATGAGTACATTGTAGAGAACAGTTTTGCCTCCACACTAAAAAAATAAAAATAAAAAAATGCTAATATTTAGGAACAAATTGGTGGGTTTTTTTGTATAAAACTATTTCAGTGATATTTAGTTGATAATACAGATAGTTAAAAAGATTTGTGTTTTAAATTGATTAAATAATCACATGAGTGATTATAATTAAACTTTATTCTTCACAGCCCATCTACTCTATTTTTCCTATTGGAAACAATGATATCCAGGATTTAAGTATGGCCCCTGAAGCAGGAAAGTGAGGTAGCAAAGGCATTACCTGTTAACTGTCTTTTGAATGATAGTGACGCCTTAGCGCATTTGGGAGTGAGATTAGAAGTATTTTGGCTAAGGGCTTCTTCATGTTCTTCTTTAAGAAAACTAGAAGTACACTTACTTGAAGGGTGGGTCTTTTGATTGCCATGGTTATGTCTCTGTCTTTGTTTTGTTATTACAACCTTGAAAATAAAATCCTTGTGTGCAAATGCATTGTGAAATGTCCAACTTGGGAAAAGCTTGCCTATTTTGAGAACTTGTCACTTTAAAGCCTCAGTGACGATAGAGATGGCTACAAATGATGTACTTTATTTCTGGAAAAGTCTAATTATTTCCCCTGAATTTTTCCAAGGTGAGAATTTTTATTCTGTTTTCTGTTTTCTCTTTCATTGTGAGTCTTATAGGATAAATTGTCCAGCTAGCAAGCACTTGCTGGCTAAATATCCCATAGTGCAATTATATATAGCATGTAGAGACCATAAGTCAGGAAGTTAGCATATGTAAAATGCTAAGAAAACATCCATTTGCACACTTAGCAAGCCTATATCGGCCAAACATGCCTTTGATTCTGAAGAAGTTTGCAGGCTGAAGCTATCACTGAAGACGAGGGATATGAATTTTTACACGTGTTTTTTAGCAATCCCTGGCTTCCTTTTTTATGCTATAAAATTTGAAAACTACAAACAGCATTGACTTGCTCCTGGTGCTGAGTAATGCGGGCTTCATTTCCTTCAGATCCTCGGTCTGTTCAAAGAGGCCATTTAATTCATATTATTAAGTGTAAGGTGATTGAAGAAGACCCTGATAGAATCAGGTAAAACCAATTCAGTGTTCTTAGGTTGTTAAAATTTCAATGTATTTTATTTAAGCAGAATTATATATACTGTATATTAACTATTCCAAGCAATCTTTACTCAGCTCAGAAAGGCCAGATGTATGGGAATTGTAAAAAATCAGGATATGCATAAAGCTGTTCACGTGCATAAAACAGCCCCATCTGGAAGACATCTACCAGAAATGAAGTTGTACAAAACCATTCCATTGATAATAAAGCTAATTTTTATGGGTCTGACAAGTATGTAATTATGTTCAGTGGTGCTTTTCAGATTTTATCACAGTCAATAAACCGCAGTGGTAATTTCATTCCCATTTGACATATTTACATGGAAACATTTGATTGGAGGAATTAGTAACCCTGAAAGCCTTGATAGATATGTTTTAATGATCTGTGACCTCCACAGTCCCTCATCTGTTTATTGTTGCAACAG
Seq C2 exon
GCGAGAAGTCGTTTCTCTGTGACCTCTGTGGCTTCGCCGGTGGGACCCGGCATGCCCTCACCAAGCACCGTCGGCAGCATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048410-Zfp407:NM_001033341:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.138
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF134651=zf-H2C2_2=WD(100=49.1),PF134651=zf-H2C2_2=PU(38.5=17.5)

							
A:
NA

							
C2:
PF134651=zf-H2C2_2=PD(57.7=51.7),PF134651=zf-H2C2_2=PU(38.5=34.5)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000118361





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr18:74877364-74881035 
ALTERNATIVE
HsaINT0187133
(ZNF407)
Human
(hg19)
chr18:72589320-72592991 
ALTERNATIVE
HsaINT0187133
(ZNF407)
Rat
(rn6)
chr18:81204882-81208387 
ALTERNATIVE
RnoINT0168187
(Zfp407)
Cow
(bosTau6)
chr24:3994312-3998209 
BtaINT0165440
(ZNF407)
Chicken
(galGal4)
chr2:91604695-91609184 
ALTERNATIVE
GgaINT0094072
(ZNF407)
Chicken
(galGal3)
chr2:93951791-93956286 
GgaINT0094072
([1])
Zebrafish
(danRer10)
chr16:6800183-6800384 
LOW PSI
DreINT0181417
(znf407)
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"