Special

MmuINT0178957 @ mm9

Intron Retention

Gene
ENSMUSG00000031079 | Zfp300
Description
zinc finger protein 300 [Source:MGI Symbol;Acc:MGI:3045326]
Coordinates
chrX:20656276-20661126:-
Coord C1 exon
chrX:20661034-20661126
Coord A exon
chrX:20660418-20661033
Coord C2 exon
chrX:20656276-20660417
Length
616 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TTTATTATTTTTCTTTTCAGAAG
3' ss Score
9.64
Exon sequences
Seq C1 exon
GGTATCCTATTACCAAACCAGAAGTGATCGCCTCTTTAGAGAAAGGAGTCCTTGGGATAATAAAGAGAGAAATTCCAAGTTCAAGTTGCACAG
Seq A exon
GTAAGAAGAGAAAATTAGATGGTGAAAGCAAGACCCTAAATGCTCTGGTGAAGGTTTTCTATCTCAAAAGATAGAAGGATCTCAAAAGATCTCAAAAATATCTTTCTAAATTGTGTGTGTGTGTGTGTGTGTGAGTGTGTGTGTGTGTACTCATTCCAAATTTTTAGTTTAGTAAGCTTATCTCACAGTAACCTTTGAATGAGATGTTAAGAAAGAAACTGTACCCTGCTTTGGCTTATTCCTTCAGCTTCTTTTTCCATTCATTCAATCATCTCCAGCCTTTCTGAAAGCATTCTCGGTGTCCCTGCCCACAATCCTAAATTTACTGTCTTTTCAGGATCCCTTTTTCTATTCCTAGTTCTCTGAACCTGTTTTTAGTTTCCCCACTTTTAACCTAATTTTCAGTCATATTACTTATATTTATTGTTATTTCTTGTTCCAATGTTCATTAGATCACCTTAGAGTTTGTTCCCTCAAGCTCTTAGTGTAAGAGAGATGCATGCTTGGAACCTTTTTCTGGGAAATATGTAGAGTCAGAAGAAAATAAAAGTGAACACCATCGCCTGCTTCTGACTGGCTTTATTTACAGAGTCTGGTTTATTATTTTTCTTTTCAG
Seq C2 exon
AAGATGGTCAAGCTGAATACAACTTGGCATGGCATCAGAAAAATCAAAATATGCACCTGGAGCAAGCTATATCCATTATTGAGAAAAATGTAACTGAAGAAAGAAGTTATGAATATGATGGATTTGTAAGCCCACTTTCTCAGAGCACATGGGTAGTTTCTTCAGGACCCACACCCTATATGAATAACTCATTTGGAGAAAGTATTAAAAATAATTTAGGTTTAGTCAATCCTAGTAGTATGAGCTTTGCAGCTCAGGAATGTTATGAATGTAATAGATGTAGGAAATTATTAATTCCTGGCAGACATGAGATAAGTGACAGAATGAAATCCCAGGAGCATAATATGTTTGGAAAAGAGCATATTTATAACTTTGTTCAGCATGACTTGACTCAACTTGGAGACAAAACCTATGAATGTCCTGAGTGTAGAATAACCCTTAGCCCAAGTTCATTCCTTGTTGTTCATCAGATCACTCACATAGGAGAAAAGCCTTATGAATGGGCAAGATGCAGAGAAGCATTCAACAACACAGCACACCTCAGTCTACATCAAACAATGCACACAGGAGACAAGCTTTTTGAATGTAATGAATGTGGCAAGTCCTTCAGAGAGGAGTCAACACTGCATATACATCAAAGAACACATACAGGTGAAAAACCATATATATGTACTGAGTGTGGCAATGCTTTTCAAGAAAAGACAAATCTTATCATACATCGGAGAACTCACAAAGGAGAGAAGCCCTATAAATGTACAGATTGTGAGAAAACCTTCAACCAAAAAGCTCATCTTAATGTACATCAGAGAACACACACAGGAGAAAAACCTTTTGAATGTACCAATTGTGGCAAGTACTTCAGAGAGAAATCAACTCTGAATATACATCAAAGAACTCATACAGGAGAGAAACCATATGTATGCAATGAGTGTGGCAAAGCCTTCAGAGAAAAGACAAAACTCATTATACATCAGAGAACTCACACAGGAGAAAAACCCTATGAATGTTCAGAATGTGGGAGAGCATTTAACCAAAAGGCACACCTCAGTGTACATCAGAGAACACACACAGGAGAGAAACCTTTTGAATGCAATGAATGTGGCAAAGCTTTCAGAGAAAAGTCAACACTGCGCAGACATCAAAGAATTCACACAGGAGAAAAACCTTATGTGTGTTCAGAATGTGGAAGAGCCTTTACCCTTAAGCTAAGCCTTAGTGCTCACCAGAGAATTCATACAGGGGAAAAAACAGATGGATGTACTGTATGTGGAAAAGTCTTCTCCCGGAAGTCATACCTCATGTTACATCAGAGAGCTCATACAAAAGAAAGACTTGAAAAATCATATGAATGCAATGAATGTGATAAAGCATTCTTACAGAAATCATATCTCATTATTCATCAGAGGGTTCATGCAGGAGAGAAACCCTATGAATGTAATATATGTGAGAAATCTTTCTCCCAAAAATCATATCTCATTATTCATCAAAGAATCCATACAGGAGAGAAACCGTATCAATGTGATAAGTGTAGCAGAGCCTTCAGAGAGAAGTCCAAACTCACTGTGCATCAAAGAACTCACATAGGAGAGAAACCCTATGACTGCCCTGAATTGGAAAGAAACTTTCCAGAGATCAAAGTTCCTCATGGATTAGAGAACTCAGAGATGAAAGAAAACAAAGAACTGAAAATGGAAAATCTGTCATAGTAAAGTTAAAGAAAATGGAAATGCAAAAGGCAAGGGGAAATTGTGCTGTAGCTAGGGTGCTTTTCTAATCATATGACACACTTGTCCTTAAAGATCAGCACCAGCCATATTGAGAGAAGAACATTCTGAGTAAAAGAAATAGGAAGATCTTATTTCTTAAAGAAAAGAACTTGGCCTCTGTACTTTTTTTTATCATGGATATATTGAATTATCATTTGTTATCAAAGAGGTTGTCAATGCTGAAATCTTTTCAAGTCTTCAATGTATAAAAGCTGTCAGTTGAAAAACAAACCTCATCATAAATGTGGGCATACATATAAAAAGAATTCAATTAATTAATTTCTCAGAAGTAAAGTAAAGGAAATATGTAAGTTTCCAAATTTCAAATACTCATAGAAAACGTAAAAATAACGTTAGAAAAAGTGGTTTACCAAACAATTTTAAGTTAAATATTTAAATATAACCATTAAAGGAATATATTACAAAATTCCAAATTATTTTAATAATCAGAACAATGTAAGAAAATACTACTAGAGTATCAAATCCAGTGTTAGGCAGTAATAACAGTTGATAATGTCAATGTTTCCTCCCCAGCCTGATCTGGGAAGACTATAAGCTTCCAAGGACTATAAGATGCCTAATAGGCTTTAGAAGACATGTTTTTGGCACAAATTCACCAGTGTTCATTTCTGCTGCTTTTAATTAATGCCTACCACATTCATAATTTTGTCAATAGCCAGCATGGTAGCATCTTTTATGGACTCCCAGAGAGATGTGAAATTTGGTTATCTATCCCGGTTGGGGTGAAATAATGGAAAATTCCAGTTGACCTTAAGGAGGAGGTCTTGAACTCTCCTTGCCATGCAAGGACAGCTAGCTGTTTTACTGATCGTCTGTGTTTATTTTGATGAACGCTGAAAGCAAGGCTTTGGGTAACTGAGCCCTGACCATGGACTACAAAACAACATGAGCAACTACTTCATGAGAATAGCTACTTCCAATGGGACTGCCCAATAAAATGAGAGCAAATGGCAAGTAGTTAATAGCTGTGTTCAAGACACAGCCTGAAAACCAGGCATTCTGTAAAAAGAAATTATCACTTTGTGTGTCCTTTGAATTCTTTGTCTAAATTACAAGTCTGTCATTTTAAACTTTAGACTTAGATCATGAAAGAGATAATAGGAGGTTGGGGCTTAGAATGGAAGTATGTTAGAGTATGTGGTAGAATGTGACTATTTTAAACTCTCATTGCACACTGTATTTTCTCTATTTAATTTAATTCTCCCCGAAGAGGCCACAAATGTCTTAAATAAAGACCCTGTAGTGACCTAATCTGAAAATGATGCTTTTAAAGATAGGACATCTTTCATATCCTTATACCCAACCCCTCTATCTCTAAATCTGTAATTGAATTTTTTTTTTTGGATGCAGGGTCTTTATGTAGGCTAGGCTGCTTTATGGTTGTAATTTTATGCCATTGCCACCTAAGTGCTGGTATGACAGGCATGTACCACCATATACATATCTTTTTTCAATTTTTTATTAGATATTTTCTTCATTTACATTTCAAAAGCTATTCTGAAAGTCCCCTATACCCTCCCCAACCCTGCTCCGCTACCCACCCACTCCCACTTCTTGGCCCTGGCATTCCCCTGTACTGGGGCATATAAAGTTTGCAAGACCAAGGGGCCCCTCTTTCCATTGATGGCTGACTAGGCCATCTTCTGCTACATATGCTGCTAGAGACACAAGCCCTGGGGATACTGGTTAGTTCATATTATTGTTCCATCTATAAGGTTGCAGAGTCCTTCAGCTCCTTGGGTGCTTTCTCTACCTCCTCCATTGGGGGCCCTGTGTTCAATCCAATAAATGACTATTAGCATCCACTTCGGTATTTGCCAGGCACTGGCATAGCCTCACAAGAGATAGCTATATCAGGGTCCTTTCAGCAAAATCATGTTGGCATATGCAATAGTGTCTGGGTTTGGTGGTTGTGTACGGGATGGATTCCTGGGTGGGGCAGTCTATGGATGGTCTTTCCTTCCATCTTAGCTCTGAACTTTGTCTCTGTAACTCCTTCCATTGGGTATTTTGTTCCCCATTCTAAGAAGAAGCAAAGTAATCCACACTTTGGTCTACCTTCTTCTTGAGTTTCATGTGTTTTGCAAATTGTATCTTGGATATTCTAAGATTCTGGGCTAATATCCACTTATCAGTGAGTGCATTTCATGTGTGTTCATTTGTGATTGGGTTACCTCACTCAGGATGATATCCTACAGATCGATCCATTTGCCTAGGAATTTGATGAATTCATTGTTTTTAATTGCTGAGTAGTACCCCATTGTGTAAATGTACCACCATTTCTGTATGCATTCCTCTGTCCAGGGACATCTGGGTTCTTTCCAACTTCTGGCTATTATAAATAAGGCTGCTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031079-Zfp300:NM_183185:4
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=PD(0.1=0.0)

							
A:
NA

							
C2:
PF0009621=zf-C2H2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=4.6),PF134651=zf-H2C2_2=WD(100=4.6),PF134651=zf-H2C2_2=WD(100=4.6),PF134651=zf-H2C2_2=WD(100=4.6),PF134651=zf-H2C2_2=WD(100=4.6),PF134651=zf-H2C2_2=WD(100=4.4),PF0009621=zf-C2H2=WD(100=3.9),PF134651=zf-H2C2_2=WD(100=4.6),PF134651=zf-H2C2_2=WD(100=4.6),PF134651=zf-H2C2_2=WD(100=3.3)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000046514





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chrX:47871149-47872760 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr17:44968693-44972112 
ALTERNATIVE
BtaINT0165784
(ZNF605)
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: 
ACCAAACCAGAAGTGATCGCC

				
R: 
AACATTCCTGAGCTGCAAAGC

				
Band lengths: 
346-962

			

		

	





	
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"