Special

MmuINT0178536 @ mm9

Intron Retention

Gene
ENSMUSG00000055835 | Zfp1
Description
zinc finger protein 1 [Source:MGI Symbol;Acc:MGI:99154]
Coordinates
chr8:114190020-114194911:+
Coord C1 exon
chr8:114190020-114190104
Coord A exon
chr8:114190105-114193390
Coord C2 exon
chr8:114193391-114194911
Length
3286 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
TTCACTGTGCTTTGTCCTAGAAG
3' ss Score
7.77
Exon sequences
Seq C1 exon
GAGGAGTGGGAGCAACTGGACCCCTCGCAGAGGATTCTGTACATGGATGTAATGCTGGAGAACTACAGCAACTTACTTTCAGTGG
Seq A exon
GTAAGGACAGCTTTGGGGATGATAGGAGTTGTAGACAGTGTAGTTAGAATGGTCAATTCAGAATTCTCCAAGGGAGCTACAGAAGGAAAATGGCAGATGTGATATCTGAGGCTTTGAACAGTTTGAGTACATTTGAGGTTTACAGGATTTTGTTTGTTTTTAAGGCAGGATCTCAATTATGTGGCCCTAGCTGGTCTTGAACTCAGAGATCATTAGCCTCTAACCCTCCTGCCCCAGTGCTGGGCAAAAGATGCACACTGTGGAAGGATTCATCTAGCCCAGCCTAGCTTTGAACTCTGTATGTAAGCCGAGTGTAGGGTTCCTGATCCTCCCAGTTGGACTCTCAAGCAATCACAGACATGCACTGCTATCCTGGTTTTATGTGGTGCTGGGATGGAGCCCAGGGCATTTTAGGTATGGTAGCTAAGCACTTTGCTAACAGAGCTACGTTTCCAGCCTCCTTTGGAACTATCTTTCTTTCTTTCTTTTTTTTTAAAGATTTATTTGTATGTATGTATGTACACTGTCACTGTCTTTGGACACACCAGAATGCGTAGGATCTCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATAGAACTCAGAGCCTCTGGAAGAGCAGTCAGTGCTCTTAACCTCTGAGCCATCTCTCCAGCCCTGGAACTATTTTTCAATTCCAAAAACCTTTAGAGATGACTAAGAGCTCAGGATGGCTTGTAGTTTTGATCCCTGGCACACTTCCAAATACTCCTCTCTCCAGATTTATCAGTGCTTGCCTGACACATTAGTACTGGGAGTTTTAGTTATGTTCTCAATTTACCAGAATGATGACCTTGTATTTAACCCGTGGGAATGGGCACAGATTTTTCAATACAAAAATGAGATGGTTTTAGACAGCAGCAGGATCCTAAGGAGTAGCTAGTATACATCAGGGCTTTTAAAGGTCTAGACCAAGGCAGAGCACAAACTCTTAAATCTGCTCAGGTAAAGTAGGGCCACAGTAGAAAGATGAAAACGCAACCATGCTCAGCAGCCTTGATGTAAGAAAAGCTGTAAACCCAGCATATGATTGTGTCATAAGGACCCAGACTTTCCATTTTCAATACAGTGAACTCGGGGATCTTTATTGTTGGTATGTGAGACAGTCTCTCTACATAGTGTTGGCTGTCCTGGAACTCACTGTGTAGACCAGGCTAGCCTCAAACTCAGAGAGATCTGCCTGTGTCTCTTTCCCAAGTCCTGGAATTAAAGGTGTGTGCCACCCTGCCTAGCTAACTCAGAGATCTTGCTATCTACTTGAGAGGTGTCTCCAGAGACTTGAACACCACATGAGAAAAGGAAAGGTTTTGAGTTATTTGGGGGCTAGTGAGATGGCACAATGGATAAAGGGCCCTTGCCATAAAAAACATCATGACTTGAGTTGAACCCTAGAACCCATGGAAAAGTCAGAGAGACACCTGACTCTGTAGAGTCTTCTGATCTCTCCTCTCTCCCCATGTTTTGTTTCTTTTTGGAGACAGAGTCTGGCTGTGTATCCCTGACTGGCCTGGATTCACTGTGTAGACCGTGCTAGCCTCAAACTTGTAGAGATCCATGTGCCTGGATTAAAGTTGTGCTGAGATTACAGGTGTGGACCGTAATGCCTAACCGTTATTGTTTTAAGTTATTTTGATGTAAGAGGTGTGGTTCAGTTGGTAGAATGCTTGCCTAGCATACACGAAGTCCTAGACTGGATTGATTCCTTAGCAGACCCTGAATCAAAAAGATTTAAAAGTCAGAACTGGAGAGGTAGCTCCGTGGTTAAGTGTACTTACTGCAGCTGGGAAGTGGTGGCGTATGCTATCCTATATGCTGGGAAGTGGTGGCGTATGCCTTTAATCTCAGAGCTGGCAGATCTCTGTGAAGTTGAGGCTTCCATGGTCTACAGAGTGAGTTCCAGGACAGCCGAAGCTATAGAGAATCTGGAAGAAAAAGAAAAAAGAGTACTTACTTGCTGCTCTTCTAGAGGACCTGGGTTCAGTTTCCAGCACCCATATCGTGGTTCACAGCCACCTGCAACTTCAGTTCCTGGGAATCTGGGACCTTCTTCCTAGCCTCTGTGAGTTTTAGGCACACACACGGTGCACAGCCATACATATATACAAACGAAACACCCACATATATTGAAAAAAAAGTTAATTGGGGGCCAGTAGTTAAAACAAATGTCTGTAATAAAGAGTATAGCTGGGAATTTTAGGCCAGTCTGGTCTGCATACTGAAACCCAGTCTCAAAGGGGGAAGAATAATGGAGGTGCACAGAGAAGACTGACACCAGGGTCACTGTTAGATAGGATGAAGCGTCAGTCTCTATCCTCTGTTCCCCAGGCCTGGTCACTCAGTGTCGCCTACAGTGTTTTCTGGTCACTCAGTGTTGCCTACAGTGTTTCCTGGTCACTCAGTGTTGCCTACAGTGTTTCCTGGTCACTCAGTGTTGCCTACAGTGTTTCTTGGTTTCTAGGCTAGCTGTTTGTTGTCCTTGAGAGTACTGGGAAATCTTCATCCCTGAAACTGCTAGTTTTCTTTCTTTTTTTTTTTTTTTTAAAGATTTATTTATTTATGTAAATACACTGTAGCTGTCTTCAGACACTCCAGAAGAGGGAGTCAGATCTCGTTACCGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCTGGACCTTCGGAAGAGCAGTCGGGTGCTCTTACCCACTGAGCCATCTCACCAGCCCGCTAGTTTTCTTATGTCATCTTACACTTAAGTTTATTTTTGATTGTGACCACAGGGATGAAGAGACAGGATCTCTGTGTGTAGTCCAGACTGGGTTTAAACTCAGGCGTCCTGAGTGTTAGTTAGGATTACAGGCATGAGCTGGAAGCTTTCACCTTTGTTTGGGTTTTTTTATTTTGGGAGGGGGGTGTTTGTTGCCCAGTTTTTAGTTTCATTGGTTAGTTTTTTCCAGACAGGGTTTCACTATGAAGCCCTGACTGTTTTGGAACTTGATGTGAAGACCAAGCTGGCCTTGAACTCAGAGAGATCCGCCTGCCTCTGCCTCCTGAGTCCTGGGATTAAAGGTGTGCACCACCACTACCCAGCTTTTTTCTGCCCACTTTAAGGTCATTTTGTCCTCGGGAAACACACACAGCAGAGCTTAAGCGATGAAGACGGCTCGCAGTAGGGATTTTGTGGTGGGCACACTTGTGGGGATTTTCCACTCCAACAGAGAGCTTAAGAACCTTTCACTGTGCTTTGTCCTAG
Seq C2 exon
AAGTGTGGAAGGCTGATGGCCAGGTGGAGAGGGACCCCAGAGACCTGCAGAGGCAGGTGGGGTCACTTACAACCATCAAGAACCAACCACCAACTGAAGAAAGAGGCAGTCGTTTTGGAAAGACATTAACTCTGAACACAGACTTTGTTTCATTAAGACAAGTTCCCTATAAATATGATTTATATGAAAAAACTTTGAAGTACAATTCAGACTTACTTAGCAGTAGAAACTGTGTAAGAAAGAAAGGAGACGGGTGTGGTGGATTTGGGGAACCACTTCTGTACCTGAAGCAAGAGAAACCCCACGCTGGACTGGAATACTCAGAATATAATGGAAACGGAAGGGCTCTCAGCCATAAGGATGCCATCTTTAAACATCGGAAAATTAAGAGCTTGGTTCAGCCTTTTGTCTGTAACTACTGTGACAAGACCTTCTCCTTCAAGTCGCTGCTCGTTAGCCACAAGCGGATCCACACGGGCGAGAAGCCCTATGAGTGTGATGTGTGCCAGAAAACCTTCTCCCATAAGGCCAACCTCATCAAACATCAGAGAATTCACACCGGAGAGAAGCCCTTTGAATGTCCCGAGTGTGGGAAGGCCTTTACCCACCAGTCAAACCTCATCGTTCACCAGAGAGCGCACATGGAGAAGAAGCCATATGGATGCAGCGAGTGTGGGAAGACATTCGCTCAGAAGTTTGAACTCACCACACACCAGAGGATTCACACAGGAGAGCGGCCCTACGAGTGTAACGAATGCGCAAAAACCTTCTTTAAGAAATCAAACCTCATCATACATCAGAAGATTCACACGGGGGAGAAACGCTACGAGTGCAGCGAGTGCGGGAAGTCCTTCATCCAGAACTCGCAGCTCATCATCCACAGGAGGACTCACACTGGGGAGAAGCCCTACGAGTGCACCGAGTGTGGCAAGACCTTCAGCCAGAGGTCAACGCTGAGGCTGCACCTGAGAATCCACACGGGAGAGAAACCCTACGAGTGTGCGGAGTGTGGGAAAGCCTTCAGCAGGAAGTCTCGCCTCAGCGTCCACCAGAGGGTTCACATGGCATAGTCCTGAGGCTCAGGCAGGCTGCTGCAGAAAACCTGTCAGGCCAGAATTCTTCAGTGAAGGGGGAAGCCCTCATGAAGATGCTGAAGGAACTTGGGAAATTCTATTGAGATGTAATCAATCTCAAAAAATTAAAAAAAAAAAAAGGATACCTAAGAATATTATACTGAGGGCTGGAGAGATGGCTCGGCGGTTAAGAGCACTTCCGGAGGTCCTGAGTTCAGTTCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGGGATCCTATGCCACCTTCTGGTGTCTGAAGAGAGAGACAGTGTACTCATATAAAATAAATAATTTTTTAAAAAAAGATTATACTGAAAGTTATAATATCCAGCTAAAGAGTACATATCCAAATATATGTATGTATCTCAGTATGTGTATATCCAGATCAATTGTAAATAGACATACCCAGCTCTGTTTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000055835-Zfp1:NM_011742:3
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=0.092
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0135222=KRAB=FE(90.3=100)

							
A:
NA

							
C2:
PF0135222=KRAB=PD(0.1=0.0),PF134651=zf-H2C2_2=WD(100=6.7),PF0013017=C1_1=WD(100=15.1),PF134651=zf-H2C2_2=WD(100=7.3),PF134651=zf-H2C2_2=WD(100=7.3),PF134651=zf-H2C2_2=WD(100=7.3),PF134651=zf-H2C2_2=WD(100=7.3),PF134651=zf-H2C2_2=WD(100=7.3),PF134651=zf-H2C2_2=WD(100=7.3),PF134651=zf-H2C2_2=WD(100=7.3)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000076964





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000104771
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr16:75166897-75169252 
ALTERNATIVE
HsaINT0185472
(ZFP1)
Human
(hg19)
chr16:75200795-75203150 
ALTERNATIVE
HsaINT0185472
(ZFP1)
Rat
(rn6)
chr19:43882388-43884767 
ALTERNATIVE
RnoINT0167711
(Zfp1)
Cow
(bosTau6)
chr18:2532404-2534941 
LOW PSI
BtaINT0164375
(ZFP1)
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: 
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"