Special

MmuINT0178766 @ mm9

Intron Retention

Gene
ENSMUSG00000047603 | Zfp235
Description
zinc finger protein 235 [Source:MGI Symbol;Acc:MGI:1929117]
Coordinates
chr7:24922065-24928260:+
Coord C1 exon
chr7:24922065-24922191
Coord A exon
chr7:24922192-24925318
Coord C2 exon
chr7:24925319-24928260
Length
3127 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TTCTATTCTCTCTTCTTTAGGAA
3' ss Score
12.04
Exon sequences
Seq C1 exon
GAGGCAGTGACGTTCAGGGATGTGGCCGTAGTCTTCAGTGAAGAGGAGATGGGGCTGCTGGACGCTGCCCAGAGGAAGCTGTACCATGATGTGATGCTGGAGAACTTCCTGAACCTCCTGGCAGTGG
Seq A exon
GTGAGGACGGGGCCCTGTGTCCTTGGTGATGTCAGAGTTCACACCCGTGTGTCTGTTGCACGCCACTGCTTCCCTTTTAGGGTTACTTATTTTGTATTTTATGTACACGTGAGTGTTTTGTCTGCGTGTGTGTCTGTGCCACATTCACTCATGATGCCCACAGAGGCCAGAAGAGGGCATTAGATCCCCTGGACCTGGACTTACAGATGGTTGTGAGCCAGCATGTGGGTGCTGCACACACACCCTGGGTCCTGTGGAAGGGCAGCCAGAGCTCTGTATCACTGAACCATCTCTCTGGCTTCCACTTTATTTTTTACAACTGAATTTTACACATAGATGCTGTGCTTTAAATAAAAATTGTAAGCATTTCGTTGTGAATGTGAGAGTGTGTGTGCATTTTAGTCAATGCCATGACCATGGCAAGTCTTAAAAGGAAAGCATTTAATTGGGGCTTGTTTATTGTTTCTGAGGTTTAGTCCACTGTCTCCATGGTAGGGAGAATAGCAGCATTCAGTCAGTCATGGTAGCAGAGTGTTCTATATTCAGATCTAAAGGGAACAAGAAGACAGAGACACTGGGCCTGACTTGAGTATTTGAAACTCCAAAGTCCACCGGCTCTGACACATTTTTTTCTAACAAGGCCACACCCTCTGATATCTGTCAGTCCTCCACATTCCTTATGGACCAAGCATTCTAACACACGAGTTTATGGAGGCCATACCTATCCACACCACCACATTCTACTCCCTGACCCCCAAAGGCTTGTAGCCATAGCAGAATGCAAAATGCGTTCAGTCCAACCACAAAAGTCCCCAGAGTCGATCACAGTCTCAACCCTGTTTAAAAGTCCAGAGTTCAAACTCTCTTCTGAGACTCATGAAATCTCTCGAGTATATCCTTCTATAAAATCAAAATCAAAAGGCAGACCACATAATCCAACATACGATGGCACGGAATATTCTTTTCTAGAAGGGAGGAAAGGCAGCCCGGCGAGCAAAGACTGAACCAAAGCAAGAACGGAAACCAGGAGAGCAAACCCCAAACTCTGCATCTCTGTCTGATGTCAAAGCACTCTTCGGGTCTTCAGCTCCACTGACTGCAACACACTTCTTTCCCTTAGGCTGGTTCCACTCCCTGTTAGCAGCTTTCCTCAGCAGGTATCCCACAGCTCTGGCACCTCTGACCTCTTGTGGTCTCCAAGGCAATCCAGGCTTCACCTCCCAAGCTTCACACAGTACAGGGATAGTCCGCCCACACGCCTGGCCTCTGAGGCTTTCATTAGCTGCAGGGAATTTCCACAGCCTCTTTCATGTGTCCTTGACTCAAACAGGTAAGTATAGCCAGCGGATGCCCAGCCCTTCTTCTGCCCTTCTGAGGGTGCTTCCCCTCCAACCCCCAAATGAAGATTTCCTGTGTACTCTTCCCTACCTCAGACTGTTGGCTTCCATTTTCCCTCAGTAAAATCAAGTTGCTTTTCAATGTTTTGTGGCAAGGTGTAGCTATGTAGCCTAGGCTTGCCTGGAATTTTGTGATTCTCCTGCCTCAGTGTCCCAACCACTAGGGTAATGGGCTTGGTCCACTGTGCCTGACTGGTACCCCATCTCCCTAGGGCCTCACACTCCAGCTCTGCTGGTCTCCATTTTTTCCCCCTACTTCTGTCTTTGTGTCTAAGCTGCTATTGCTATTGCTTGCTTTTCTCTGCTTAGAATTCTCTTTCCAGGTAGAATGCCAGCCTCCTCTTTCTCTGTATTTGTCTGCTGAGAAGTCCTCACAGATCCAGCTCTGAGGAGCTGCTTTCCATGTGTCTGCTGCTCAATCTCCATAGTCTGCACTTGCCTCTGAGTGTCTGAGAACCACCAGACTTGTTACCACAGATTTTGGTTGTGGTGACACACCAAAATCCTGAGTGTTTGCACGTGTTAGCAGGGGTTCCATGAAGCCTGTGCCCCTTGTGCAGCTGCAGCAACAGCAACAGCCATCCCTAGAAAGCCTTTCATGTTCCTCACAAGAGCATCCCCACCACCACCAACTCCCCCCCCACACACATACACACACACACACACACACACACGCCACTTCATTCCTATACTTTTCTCCCACTTATACTAACTATTCTGATGTGTCATGGAAGCTACCGAGCTGCATCCTGGGAACACTGGTCTTCTACTTCACTTGTTTCTGTTTTCAGCTTCAGAAGTTGTCCCTTTCACTGTTGTTGTTTCCTGTCCTGATAGTTTGCTCTCAGGTCATTTTCTCATTTCCTTAGGGGACCTATATGATAGTGTAGCAACCCTTGTTATTCTATCATGACATCTGCTTTGTTAGGTTGGCAGCTGAGATCTCCCTTCTTTTTTGAGCCCTTCTTCCTGCTCCTTTGTGAGCCTCGTGATCTTAGGTTGCAGAGCAGGCATTTAAAGAAACCTACTCGCTCCTGCCCTTGCAGCCTGCCTTTTTCACCCCAGAAAAGCCCTGTCCTAATCAGCGGTGTGTTTTGAGTATTTTAAATCTTTCAATCTTAAAGCTTTATCTCTCTTCTCGTATTTTCCAAGTGAGCTTGTATGCTGAGGTTATTTCAGTCTCTTCCTATACACGTGTTCTCTCCAACACAGTGGCCTCCTCAAGCTGGACACCGGTCCTTTGCTGTGCCTGTGATCCTTGTACACCTCTTTTCTTCCCTCCACCTCTGAAGCTTCCGTGCCTTCCCATTACACTCTCTCACCTTGGCTCCCAGTCAGGTGCCCCTGATCAGACAGCGTAGGACCAGGTCACTCTAGTTTTCTCTGTTCCCTCCAGTCTCAGAAGGAGTTAAGACTCATGTGTATTCTAGCCCATACCATTGCTCAAATAAAAATGCCAAAAATGCTGAAAAGTTCTTTCTTCTCATTATCCATCTGCACAGCTACACACGGGCCTTGTGAGGCAGTACTCAGTAGATGCTGAAGGTGCCCTGAGCCTTCCCTCCTGGGTTCACCACAAATTTCCTACCATGGTCAACTGAGGCTTGCTCTTGTGAATCTGCACTCTGTGTGATGCTGGTATTTAGCTAATGTTCCCAGAGAGAAGTGAGGACTCAGATCTTCAAAGCCTCCATCCTCACTGAGATCACCTTCTATTCTCTCTTCTTTAG
Seq C2 exon
GAAGTCAGAGTCCAAACAAGGTGGACACTCTTGACTCAACAGGATTAAGGCACCTTTCACTGGGGTGGCTTCCATGCTGGCATATGACAGGCCATGATGTCAAGAAACTGGCCAGCACTCCAGATGTTGTAGTAAACATTCAAGGAAAGAGTTCTCACTTCCTGGAGCAATGTCACTCCTCCTGCCATGGCGGAACAGAAGAGCCTCTCCAGGTCTCCGAGGATAATGGCTGTCTGGAGAGTCTCACAAGCGATCATTCCAGCATTACCGAAAATCAGGAATTTCTGTCTGGGAGGGCTCAGAGTTCTTGGAGTAAAACAGACTTTAGTGAGAGATGGAACCATGAGAAACGCTGTACTCAGACTCTGGTGAAAACTAAGTCTCAGCTGTTGGCTCTGGGTGTTGACATTCTGAATTGCATTTCCCATCAAGATAACAATATACTGCATAAAAGAGACAAAGTCCCCAGCAGTGGTGACTGTGATCAAGTCATCTTCCCTATGGCATGTCTCACCCAGTCTCCTGTTTACACAGAACAGAAGGCCTACCAGTGCAACACAGGCCAAGACGCCTTCATTGACAGCCCCAGTCAGGAGACTCAGCAGGTCCTCTTAGGAAATAAGTCCCCTGTACATGGTACATATGAGGACACTAGTTATACCTCCAGTGTCATTCAACAAAGTGTCCATCCAGGAAGAAAGCGCTACTGGTGTCAAGAGTGTGGCAAGGCTTTCAGTCAGAGCTCAAATCTGCAGACTCACCAGAGAGTGCACACGGGGGAGAAACCCTATACCTGCCCTGAGTGTGGGAAGAGCTTTAACCAGAGCTCACACCTGTATGCTCACCTGCCCATCCACACAGGCGAGAAGCCCTACTGCTGCGACAACTGTGGGAAGGGCTTCAGCCGAAGCACAGATCTCAACATTCACTGCCGAGTGCACACTGGAGAGAAACCTTACAAGTGTGAGGTGTGTGGGAAGGGCTTCACACAGAGGTCACACCTCCAGGCCCATGAGAGAATTCACACAGGAGAGAAGCCATATAAGTGTGGAGACTGTGGCAAATGCTTCAGCTGTAGCTCAAACCTTCACACCCACCAGAGAGTCCACACTGAAGAGAAACCGTACAAGTGTGACGAGTGTGGGAAGCGCTTCAGCTTGAGCTTCAACCTCCACAGCCATCAGCGGGTCCACACAGGAGAGAAGCCATATAAATGTGAAGAGTGTGGGAAGGGTTTCAGTTCAGCCTCAAGCTTCCAAAGCCACCAGAGGGTCCATACAGGAGAGAAGCCATTTTGCTGCAGTGTCTGTGGGAAGGGCTTCAGTCAGAGCTCCTATTTTCAAGCCCATCAGAGAGTTCACACTGGGGAAAAACCATACAGATGTGATGTGTGTGGGAAGCGCTTCAACTGGAGTTTGAACCTCCACAATCACCAGAGAGTCCACACTGGAGAGAGACCATATAAATGTGAGGAGTGTGGAAAAGGCTTCAGTCAGGCCTCCAATCTGCAGGCCCATCAGAGTGTCCACACTGGTGAGAAGCCATTCAGATGCAATGCGTGCCAGAAGCGATTCAGTCAGGCCTCGCACCTCCAGGCCCATCAGAGAGTGCACACAGGGGAGAGGCCCTACAAATGTGACACATGTGGGAAAGCCTTCAGCCAGAGATCCAATCTCCAAGTTCATCAGATAATTCACACCGGGGAGAAGCCGTTCAAGTGTGAGGAGTGTGGGAAGGAATTCAGCTGGAGTGCAGGACTTACTGCTCACCAGAGGGTCCACACAGGAGAGAAACCCTACACGTGTCAGCAGTGTGGGAAGGGCTTCAGTCAGGCCTCACACTTCCACACTCACCAGAGGGTCCACACTGGGGAAAGGCCCTACATCTGCAGCATTTGCTCTAAGGGCTTCAGTCAGAGATCACATCTGGTCTACCACCAGAGAGTCCACAGTGCAGGGAATCCCTAGGTTTGTTCTATTAGGTGGGCTCCACGCTGCTTTCCTCAAACCCAGAGGCTTCAGGAGACTTCACCGGGATTATCTCTTTTCTTTGGGAGATCTTTTTTTTTTTTCTTTTTGTTTTTTATTTTATTTATTTTAATTTTTTTAAGACCAGATTTCTTTGGCTGTCATGGAACTTGCTCTGTAGACCTGGCTAGCCTTGAACTCACAGAGATCCACCTGCTTTCGACTCCTGAGTGCTGGGATTAAAGGTGTGTGCCCAGCTGGGAGATCAGTTCTTTATAAATGTCAGAAATTACGTATAAGAAGATCATTGCTCTATAAATGTACTGTTACCATGTACAAGAGTTCTAAGGTTGCCACCCTCAGGATATGACGGAGCAGGAAATCTCAGCATCCATCCAAGTCTCCAGAAAGGCTGCAGGAAGTGCTTTAACCACAGCTGGTGATTGGCAGAACCGCCGTTGACTGAAGCATCACTTCCTCATAGGAAGCTCCTCTCTGTATCTGCTGTGCAGAGCTGCATGTGGCTCAGGACCCAGCCATTCCTGGAGCAAGTTAGAAAAGCCCCTGCAAGTAAGGCTCAAATTCGAAAACACTTGTCAACCCTCAACCCTGCATTCATATTGAGTCGTATTCCCCAGTAATCGTGTAAGGGACCATTAGTCAGCTCCCTTGAGGCATAGTGCTACCCAGTCAAGGCTGCAGTGTGTGACCTGCCTCTCTAGCATGGTGCTTTGCATGGCAATAGCAACTCTGTACTGGATGAGTTTTAGTATTTGTACTTAATAGACTAAAACCATGCTCTGTTTGAAAATTCCATATTTATCAACCCAATAAGGTGAACTGAAACTTATGCGATTGGAATTTTGGGCCCTGAATTCATTGAGGAAAGAGCTTTTTATTGTAATCACTACTGCAAATGTTTTTGCAAAGTATTTGCTGATGACATAAAGGTTCTTAATAAACTTGAATTATTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047603-Zfp235:NM_019941:3
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=0.076
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0135222=KRAB=WD(100=95.3)

							
A:
NA

							
C2:
PF0135222=KRAB=PD(0.1=0.0),PF143691=zf-RING_3=WD(100=6.1),PF097235=Zn-ribbon_8=WD(100=6.4),PF134651=zf-H2C2_2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=3.8),PF134651=zf-H2C2_2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=3.8),PF134651=zf-H2C2_2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=3.8),PF134511=zf-trcl=WD(100=3.7),PF134651=zf-H2C2_2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=3.8)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000050803





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000096291
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr19:44289197-44298807 
ALTERNATIVE
HsaINT0186539
(ZNF235)
Human
(hg19)
chr19:44793350-44802960 
ALTERNATIVE
HsaINT0186539
(ZNF235)
Rat
(rn6)
chr5:139858964-139862929 
ALTERNATIVE
RnoINT0005501
(AABR07049821.2)
Cow
(bosTau6)
chr18:52552155-52558911 
ALTERNATIVE
BtaINT0165070
(ZNF235)
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"