Special

MmuINT0178971 @ mm9

Intron Retention

Gene
ENSMUSG00000057551 | Zfp317
Description
zinc finger protein 317 [Source:MGI Symbol;Acc:MGI:107775]
Coordinates
chr9:19449669-19454175:+
Coord C1 exon
chr9:19449669-19449751
Coord A exon
chr9:19449752-19451145
Coord C2 exon
chr9:19451146-19454175
Length
1394 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
TCTCATCTCTTAACCAACAGGAA
3' ss Score
9.7
Exon sequences
Seq C1 exon
ATTGGGGAACTACATCTAAAGTCAAATGGTCTATTCTTCTGGAAGATATTTTTGGGAAGGAAGCATCTGATGATGTAAGATTG
Seq A exon
GTAAGATTTCCTTAGGCTAAATCTGTTTTCTGCGTTGGAGAAACTCAATGCAGTTGCTAGTCAGCTCACTCAAGGACCAGTCAAGTGACATACACTAGAGGAAACAGGAATTTCACAAGTGCTAAGTTACAGTTTTTCCTTGGTATCTGCATTCCAGTGAGCTGGACTCGGTGGAATGCAGATATCAAATTCTAAGACTACTTAGTTTCTTTATATAAAATGCCACTTTGTATTGTCTGCATAGAACCTGTACATAATCATTATGTTGCCCGTAATACATAGTATAGTATGGTGTATAAAATGTGTAAATAGCTTTATTATTGTATTGTCTAGCTAATAATGATAAAAGATTGCATATGTTTGACATAGATATAGCTATTTTGTCTTTAAATTGTGACTGAGATTGCTGGAATCTTGAAATGGAACCATTGAGACCCACTATATTGTGAATTTGGGCAGGATCCCAGCCCCAGACACTCTCCTTTAGAGTTCAGATAAATAAATATTTCTATAATGCATGATGGGGCTTAATTTAGTTTTAAACAGTGAACAAAACTGCATGCCAAAAACCACTGTAGCACAGTGCACATAGATCCTTAAAGCACAGCAGCCAATATTCTACTTTTACTTTATTTTTAACTAGGCAAAACCTTGTATAACCCAGGCTAGCCTGGTACTCCAAATCTTGTTCTTTGCTTTTGCCTTCTGATTTGATATTGCAAGTGAGTGCCTACAACCACTTCAACACTCCTTTTCTCTTTGGTGAAGCTCAAATGAAACAGGAACAATGATATCCTAGTTTGGGCTGTTATTGCTCTATAAAACACCATGAGCAAAAGTAACTTGAAAGGGAAAGGTTTTATTTGGCTTAGACTTAAACATCCATAGTCTGTCACTGAAGGAAGTCAGGACAGGAACTCAAACAGAGTGAGAACCTGAAGACAGGTACTGATTGGAGAGGCTATGGAGAGCTTCTACTTATTGCCTTCCTCAGTTTGCTTTCTTATAAGACCACCAGCCCAGGGATGGCCCCATCTACAATCGGCTACTCCCTTCCTCCATCAATCACTAATTAAGAAAATATACTACAGGCTTACCTACAGCCCTGTCTGATAGAAGCATTTTGTTAACTGAGTTTCTCTCTAAGATGAATTTAGCTTGTATCACTTCTCAGTTGTCATAAAACTATTCAGCACAGTTATAGTAATGTGTTTCTATTAGTGCTAATTTATTCAGAGGTAAGATTTAAAGAAGCTGGGCTATATATATATTAATGGTAAAGCCCGTTGTTGTATATTTATCAGGCCTTCCTTTCAGCCATCAGCACCAAAACCATAAAATGAAATAAGGGGTGTTATAAATGTGAAAGTTAGCTCTCATCTCTTAACCAACAG
Seq C2 exon
GAAACATCTCATCTTTTGGAGACATCTTCTGAATTCAGCCACTTGTGTGAAGTCTTTGATATTGGCCCTCACCTTGCTCAGCCAGTAGGAAGGCCCACAGGCAAGAGGCCCTATCACCACCACAGCTGTGGAGTCAAGAACAGGATTCACCTGACTCAGCACATGAGCATGAATGATGGGAGAAAATGGCATAAGTGTCACCAGTGCCAGAAAGCCTTCACCACCAGTGCTTCTCTTACAAGGCACCATAGAATTCACACTGGGGAGAAGCCTTACGAGTGCAGCAGCTGTGGAAAAGCCTTCAATGACCCTTCAGCTCTAAGGAGCCACACAAGAACTCACCTGAAAGAAAAGCCCTTTGACTGTAGTCAGTGTAGTAATGCCTTCCGGACGCTCTCTGCTCTGAAGATACACATGCGCGTTCACACTGGTGAAAGACCCTACAAATGTGATGAGTGTGGCAAAGCCTATGGCAGGAGCTGCCATCTCATTGCTCACAAGCGAACACACACTGGAGAAAGGCCCTATGAATGCCAGGACTGTGGAAAAGCCTTCCAGCATCCCTCCCACCTGAAGGAACATGTCCGAAACCATACTGGGGAAAAGCCTTATGAGTGCACACAGTGTGGCAAAGCCTTCCGATGGAAGTCCAACTTCAATTTGCATAAGAAGAACCACATGGTGGAAAAAACCTATGAGTGCAAAGAATGTGGGAAATCCTTCAGTGACCTCCTATCAAGAAGGAAACACATGAGGATTCATATTGTAAAGAAGCCAGTTGAGTGTCATCAATGTGGGAAAACCTTTCGAAACCAGTCCATCCTGAAAACACACATGAACTCTCACACTGGGGAGAGACCTTATGGCTGTGATCTCTGCGGCAAAGCCTTCAGTGCTAGTTCCAACCTCACTGCACACAGGAAGATTCACACTCAGGAGAGACACTATGAATGTACTTCCTGTGGAAAGGTCTTTGGTGATTACCTGTCACGAAGGAGGCACATGAGCATCCATCTTGTCAAGAAGCGGGTGGATTGTAGGCAGTGCGGAAAAGCCTTCAGGAATCAATCCACTCTGAAGACACACATGAGAAGCCACACAGGTGAGAAGCCATATGAGTGTGACCATTGTGGAAAAGCTTTCAGCATAGGATCCAACCTTAATGTACACCGGAGGATCCATACGGGGGAAAAGCCTTATGAGTGTCTTATTTGTGGAAAAGCCTTCAGTGACCATTCGTCCCTTAGGAGTCATGTGAAAACCCACCGGGGGAGAAGCTCTTTACGCCGTCTGTGTGGGAAAGGTTTCAGTGAATACTCAAATGCAGAGGAAGCCTGGCAAACATAAGTCTTCCATGACCTTCCATGTAGAAAACGCAAAAGGTCACATGACACTTCAGAGAAATCAGTTTGTAGAAAGTGTGAGAAGACCTGAGTTGTTATGCAGCAATTGGGATCTCTGTGAAAACCTAGGGACTGGGAAGAGTTTGTATTGAGTAGCAAGAAACTGTCAACATGTATCATGCTCCCAAACACACAAGAACTGAGGCAGAGAGTCTTCACCCTGAGCATTAGTGCTAAAGTCAGCACTACTACGTGAGCACACCAGAGTGAATCTTGCATTAAAAAATGGAGAGCAAACTGGCCAGCTCTTTATTGTTGTTGGCTCACAAGCCAAGATGCTTCTCTCTCTTTTTTTTTTTTTTTTTTTGGATTTTTTCGAGACAGGGTTTCTCTGTGTAGTCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCCCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGTGTGCACCACCACTGCCTGGTGCTTTCTTCTTTTTAAAAAGAAAAATCTGGCAGGGGCTGTACATGGCACTCAAATTCTGATATACATGCTGTTTATAAAAATCTTCATTTAAGGTTTGGTCAGTAGCATTGGCTTTCAACCTGGAGCAGTTTTGCTGTCCAGGGCACTTGTCAGTGTCTGGGTAGGTTTTAGTTTTGAGAATGGAGGGAGATGTGTTAGTGATACAGAAAGAGGACATCACAGATGCTATCAAATAGCCTATGATACACAGAAGTCTTCCATATCAAGGAATTATGTGTACTACTATAAAAGTACTGACGTTGAGAATAATCTCATGATTCTCACATGAGGAGAAATTTTTTGCAGCTTTTTAAAAGAAAAACTGCAATGCAGTTCTCTCTGAAATGTATGAAAACGCATACTGATGATAACTATGAAAATGATTTTAGCCACAGTCCCATGGTGTATGAATGTGAGGTTGTATTTACAAGTCTTTTTTGATAACAACTGAGTCTAGCTCTTTAGTTTTCTTGACCTTTTTATTAGGGTTAGGGTTCTCTGAATAACTCTTAGTCCTCATCATAAACAATTGAATGTAGTATTTTTTTTACTATAGCTTTGTAAATTATATCTTTATTTCACTTTAGTAACCTTATCCTGACCAGAGACATGTTTAGAAATGTGTGATGTTCTGTACTAGATTGTGTGGGTATTTTTGAGTACCTGTGTCCTATTCATTGTGGTCAGAGCATGAAGCTTCCTAACAGATCCTTTAGTTGGGTTTGGCTTTCTATCCAAAAAGCCAAAAGAATAACAAGGACCTAGGATTTCCCATATCCATTTAAACTCCTTTTATAGCGGAAGACTCACAGTTTTATCTGAGTATCAAATAGTTCCACTATAAGAAATCTTTTTCAGTTTTTCATGCAACTTGTATTCTCTACATGCCATGACTCTGGCCGTTGACTCATAAATAGAGATAAGTGTGTGGCATTCTGAGAAAAACCTCTTGGAAAAAAATCTGATTTTTGTTTTTTTAATTCATTTTGTGGCCCTGAAGATGAAAACTGCAGTCTAAAGATGACAGAATAGAGACATCACAGTGATACTAGTCTGTATTGTGGCTTTTGAAAGAGTTTACCTTGGAACTCAATTTATTAAATAGACTTTCTCTTCCCTGAGAAAACAATAAAATTGATTACAAGATTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057551-Zfp317:NM_172918:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.031 A=NA C2=0.119
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
PF134651=zf-H2C2_2=WD(100=5.8),PF134651=zf-H2C2_2=WD(100=5.8),PF134651=zf-H2C2_2=WD(100=5.8),PF134651=zf-H2C2_2=WD(100=5.8),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.8),PF134651=zf-H2C2_2=WD(100=5.8),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.8),PF134651=zf-H2C2_2=WD(100=5.8),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.8)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000078051





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000073983, ENSMUSP00000129000
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr19:9158909-9160113 
LOW PSI
HsaINT0186829
(ZNF317)
Human
(hg19)
chr19:9269585-9270789 
LOW PSI
HsaINT0186829
(ZNF317)
Rat
(rn6)
chr8:19890765-19902191 
ALTERNATIVE
RnoINT0168025
(Zfp317)
Cow
(bosTau6)
chr7:14745111-14745615 
ALTERNATIVE
BtaINT0165254
(ZNF317)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chrUn_random:28984309-28984486 
GgaINT0001426
([1])
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TGGGAAGGAAGCATCTGATGA

				
R: 
GCTGAAGGGTCATTGAAGGCT

				
Band lengths: 
348-1742

			

		

	





	
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"