Special

MmuINT0087883 @ mm9

Intron Retention

Gene
ENSMUSG00000042155 | Klhl23
Description
kelch-like 23 (Drosophila) [Source:MGI Symbol;Acc:MGI:2683536]
Coordinates
chr2:69661844-69667055:+
Coord C1 exon
chr2:69661844-69663057
Coord A exon
chr2:69663058-69666902
Coord C2 exon
chr2:69666903-69667055
Length
3845 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TGACTTTAATTGACATACAGGTG
3' ss Score
6.16
Exon sequences
Seq C1 exon
CATGGCTCTAAAAGGACAAGAAGATTACATTTTTCATTTCAAGGATTCGTCGCATCCAGTGGATTTTCTGGATGCATTCAGAACGTTTTACATGGATGGACTATTTACTGATATTACCCTTCAGTGTCCTTCAGGCATAATCTTCCATTGTCACCGAGCTGTTTTAGCTGCCTGCAGCAATTATTTTAAGGCAATGTTCACAGCTGACATGAAAGAAAAATTTAAAAGTAAAATAAAACTGTCGGGCATCCACCATGATATTTTGGAAGGCCTTGTAAATTATGCATATACTTCTCAAATTGAAATTACTAAGAGAAATGTACAGAGCCTTCTTGAAGCAGCGGATCTGCTGCAGTTTCTTTCTGTAAAGAAGGCGTGTGAGCAGTTTCTGGTCAGGCACCTGGACATTGATAACTGTATCGGGATGCACTCTTTTGCAGAATTCCATGTGTGCTCAGAACTAGAGAAGGAATCCCGCAGGATCCTCTGCTCCAGGTTTAAGGAAGTTTGGCAGCAAGAAGAATTTCTGGAAATCAGCCTTGAAAAGTTTCTCTTTATCTTGTCCAGAAAGAATCTGAGTGTCTGGAAGGAAGAGGCTATCTTAGAGCCGGTCATTAAGTGGACTGCTCACGATGTAGAGAATCGAATCGAATGCATCTACAACCTGCTAAGCTATATCAACATAGACATAGACCCAGTGTACTTAAAGACGGCTCTAGGCCTTCAAAGAAGCTGCCTGCTAACTGAAAATAAGATACGTTCCCTAATATACAATGCCTTGAATCCCATGCATAAAGAGATTTCCCAGAGGTCCACAGCCACCATGTATATCATTGGAGGCTACTACTGGCATCCTTTATCAGAGGTCCACATATGGGACCCTTTGACAAATGTTTGGATTCAGGGAGCAGAAATACCAGATTATACCAGGGAGAGTTACGGTGTTACCTGCTTAGGACCTAACATTTATGTGACTGGCGGGTACAGGACAGATAATATAGATGCTCTTGACACAGTGTGGATCTATAACAGTGAGGGAGATGAGTGGACAGAAGGCCTGCCCATGCTCAATGCCAGGTATTACCACTGTGCAGTCACCTTGGGGGGCTGTGTCTACGCACTAGGTGGTTACAGGAAAGGGGCTCCTGCCGAAGAGGCCGAGTTCTATGATCCTCTGAAAGAGAAGTGGCTTCCTATCGCAAACATGATTAAAG
Seq A exon
GTGAGTGTAGCTTTTACTTGTCCTGCATTTTTACATGCCTGAGCTTAGGTTGGCAATCTTCTTCGCTCTTTGAGAAGTAATTCTTTAGGAAGAATGTTTCATACTGAAATATTCTTGAGGATCTACAGTAGATTAGATGAGTGATTCAGCCCAGGGTGATTCTCCTAGAAACAGTACAGAACCCAACCTGTCTGGACGTTAAAGCAAGTTCTACAAAACACTCAGTCAGTAGAGTGCATGGCTTCCACACCTAAGCTGTGTTCCTTCACCAGCACCATATGAACTGGGCTTGTGGCTCACGCCCATGATTATGACAGTCAGAAGTTTGAGGTCATTCTTGGCTACATAGGTAGTTCAAGGCCAGCCTGGGCTATGTAAGACTCCATCTTTAAAATTTGTTAACTAAATGGAATAAAGTGTTTTAATATTTTTAAAAAGAATACCGGGGAGTAGAGGCCCTTGGTCTTGCAAAGATCATATGCCCCAGTATAGGGGAATGCCAGGGCCAGGAAGCGGGAGTGGGTGGGTTGAGGAGCAGGGTGGAGGGAGGGTATAGGGGACTTTTAGGATAACATTTGAAATGTAAATGAAGAAAATATCTAATAAAAAAAAAAGAATACTGTTCAAGTTAGAACAGAAAGCTAATTTGTGTAAGGAAATAGTATAATTCACTCTCCCCTATACAGCCTTCTTTATCTTACCTCAAGTCTTAATGTATACCTGCCTTAGAGATTGGCCTGGTTAGTTTTGTTAATTTATGGTTTTGTTTTAAACATTTGCTCTAAAAACCTTTTCAACTTTGATTTGTTTCTGTTGTTTTGTTTGAATTTTTGTTGTTGTTGTTGTTGTTCTTTTTGTTTTTGTTTTTGTTTTTTTTGTTTTGAGATCTCACTATGTAGCCATGCTGTCCTGGAACTTGCTATGTAGACCAAGCTGGCCTCAAATTCAGAGAGCTCTGCCTGTGTCTGCTTCCTGAGTGCTGAAATTAAAGGTGTGCACCCCCACACTTGGCTTCCGTGTGCCTTTTCATATCCAGCTTTTCCCGCTTGCAGAATACACTGATCAGCGCTATGAGGCCTCTTACTAAGACTTTGGACGGCTAGTCCCTTCGGAATATAACGCTGATTCTCCCCAGAACTAGAGACATAATCTGCCTGTGCTTTGGTGATGCGGGCTTCTCTCAAAATCAAGGGCAGAGACGGGGTCGTCGTCTTGCTGCCTGTGGCCCACAGAGCCAAGCATAGTGAGTCTCAGTGTTTGCTGCATAAACAGTGCATTTGTTGAGATTATCTAGCCTTGCCCTTCTTCCCTTCAGCTGGAAAAAAAAAAATCAACTAGGATCTTCTTTTACTGCACTTAAGCTTCAGTGCTTGGGGGTTCATTTAAAAAACCAAAAAAACAGCTGGTAAGTTTTTATCAAAGTGGTGTCATTTTGTCCCAAATGTTTCTTCCCAGGCCTTTCTGTTTCTTTTTTAACACTAGTGAGGGTGTGGGAATGTGACCTGGACTGGAGATCTGACCTGCAGTGAGCCTTGGATGACAGAGAAGCCGGAAGCTTAGCGGCAGATGGTCTTACAGTCACACAATGCTCTGCAGCCAAGCTGCCTGGGTCTCAGCTCTGACTTTCTCTGCCAAACTTGGGCAAATGATTCAAGCCCTCTGCCCAGGCTTTTGTTTTGTTTTGTTTTGTTTTTTAATTCCAGCTTTTGATAGCTGGGGGTCTTGTGAAGACTAAAGGGCTGTGTGCTTATAACACCAGAGCCAAGTGTGGGACTCAGGGAGCCGCTGAGTATGTGGTTGGGTGAGAGGGTGGGAGAAGGTAGCAGAGAGCCTGTTGCTGTCTAGGTTTTGGCTTTGCCTGAACCTGACCATGGCTTCCTGATTCAGAGGCTGGTCCTGAGTGCTCTGACTCCTTCCCCATAGAAGAAACAAGTCAAGTTCAAATACTTGAGCAGCGTTTGTAAGCCTGAAGGTGCTGCTGCTTTTATCTCTCAATGATAACAGTGCCACTGATTTTATAGATAATACATCCTGGGCAGGAGAGATGGCTCAGCGGTTAAGAGCACTGACTGCCCTTCCAAAGGTTCTGAGTTCAATTCCCAGCAACCTCATGGTGGCTCACAACCATCTGTAATGGGGTCTGATGCCCTCTTCTGGTGTGAGTGAAGACAGTTACAGTGTACTCACATACATCAAATAAATAAATATTTTTTAAAAAAAAAGAACTCAATGTAAACAGGGATATGGATAATGCATCCTTGAGGATAGAAATTGCTCTATTGAAAATTTCAAGAGTTATATTTGAAACTGTTTTCTGGGGGATGGAGTTGGGTACCAACTCCGGGTAGCTGCTGGGAAAGAAAGCCCTATGCTTTTATATTTCCCTTGGTGGTATGGGAAGGCTCCATACTCTGCCAACACTACCCACGTGACAGCTGGTTTTGAATTCACAGAAATCCTTTATTTTATTTTGTTTTGTTTTACTTTATTTTATTTTATTTTTTGAGACAATGCCTTGCTATGTATCCTAGGCTGGCCTCAAACTCATAGTCTTCCCACTTTAGCCTCCCAGATCCTGAGATTAGAAGCGTGAGTCACTAACCAGGGGAGAGGTATATTGCTTTCATTTGAAAGTTCTGATTCTTGTTTCTATCTAGCTAACCCAGAGGAGCGTACCACTTAGTGCCACTTTGTGCAAATTTGATGTATACTATTCTGATGGGATAGACTTATACTAAAATTAGAATTTCCCATTTTCCAGTAGAAAGAATATAATGTTATGTTTCCTCAATTGATGTTATTTGCATTGTGAAGTGAAGTAACATATTTTCTAGTAACGTAACTCCATTTGATTATCATCAAATTTCAATTTCATTTCCCTTGGGGGAGGATATTCAGGGATATGATGTACAGAAAAGAAATAAGCCCTTGCTTGGCCTCTTTGAAACTACAGAGTCTTTCTTTTTCATCATAATGACTTTTTTAGTTTTACATAACAACACATTCTTACTTTGAAGTAGATATCAACAAGGAGATTAAACTGCACTGAAAGACTTAAAACTGCACATTTTCAACTAAGACGAGCCTCCCTTCATACCTGGCCGAACCTGTTTTCTCCTCCTCACTTTTCTGTGGCCTCAGAGTCTCCCAGTTTTCCCAGTTCAAGACTTCAGAACCAGCCGGGTTTGTTTTGTCATCGAAGCCTATCTGTTTGACCCATCTTTCACCTCTGCCCTTCTGTTCACACCCAAAGCTCCTTCTAAGTCGGGCCCTTGATAATCCTGAGGTGATTCTGTCCCTACATCTCTCTGAGTCCTCTCCTTCATTTTTTAGTCCCTTCCTGCCCCCGTTTATAAGCTTGAAATGTCCTGAGGAACAAAGCCCAGGCACTCGGCTGCAACTTAAATGCCATCCTGAATTCTCATATGACGACTCCCATTGTGCTAGCCTGCACGGCATTGTCCAGTAAGCCTCTGAAGCTCTCCCCTGCTTAGAGCAGCTTCTCCTCTGCTTGCCAGAGTCCTAACAACCAGGCCCCGGGGGAGCAAATTGTGTCACCTTGCTGTGATTTCTCCAGTTAAAAGCAATATCTCTTTGATCTGAGCAATCATGTTAGCATCTCTCTCTCTCTTTTTCTTTATAGTATTTTTTCCCTTTCCTGTTACTCTTTTCTAGTTATTCTAGGTGTTCAAAGAGCACACAGAGCCATTAGGTTCAGTCTTTGACCTCGCAGCATCTACCACAATGCTTTGCCCCTACCACCCATAACAACAAAACAGTAACGGGTCGGTACTCATTTCCGGAAAGCATGAACAATCTAAGATGTGACTTTAATTGACATACAG
Seq C2 exon
GTGTGGGAAATGCTACTGCCTGTGTCCTACATGAAGTCATCTATGTCATTGGTGGCCACTGTGGCTACAGAGGAAGCTGCACCTATGACAAGGTGCAGAGCTACAATTCAGACATCAACGAATGGAGCCTTATTACTGCGAGCCCACACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042155-Klhl23:NM_177784:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion (1st CDS intron)





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF0065126=BTB=WD(100=26.9),PF0770710=BACK=WD(100=25.2),PF0134420=Kelch_1=WD(100=8.1),PF0134420=Kelch_1=WD(100=11.6),PF0134420=Kelch_1=WD(100=11.4)

							
A:
NA

							
C2:
PF0134420=Kelch_1=WD(100=84.6)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000050219





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr2:169736228-169741384 
LOW PSI
HsaINT0088698
(KLHL23)
Human
(hg19)
chr2:170592738-170597894 
LOW PSI
HsaINT0088698
(KLHL23)
Rat
(rn6)
chr3:56060091-56063459 
LOW PSI
RnoINT0080041
(Klhl23)
Cow
(bosTau6)
chr2:26631711-26635265 
ALTERNATIVE
BtaINT0082644
(KLHL23)
Chicken
(galGal4)
chr7:18085932-18087398 
LOW PSI
GgaINT0047966
(KLHL23)
Chicken
(galGal3)
chr7:20049724-20051190 
LOW PSI
GgaINT0047966
(KLHL23)
Zebrafish
(danRer10)
chr9:48477589-48480628 
ALTERNATIVE
DreINT0086992
(klhl23)
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"