Special

MmuINT0010179 @ mm9

Intron Retention

Gene
ENSMUSG00000031278 | Acsl4
Description
acyl-CoA synthetase long-chain family member 4 [Source:MGI Symbol;Acc:MGI:1354713]
Coordinates
chrX:138779971-138783654:-
Coord C1 exon
chrX:138783545-138783654
Coord A exon
chrX:138780110-138783544
Coord C2 exon
chrX:138779971-138780109
Length
3435 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
CTTTTATTTCTGTTCAACAGGCG
3' ss Score
10.05
Exon sequences
Seq C1 exon
TTGTGACTTTATATGCCACACTTGGCAGAGAAGCTGTAGTTCATGGATTAAATGAATCTGAGGCTTCCTATCTGATTACTAGTGTTGAGCTTCTGGAAAGCAAACTGAAG
Seq A exon
GTAAATATGAAGCTTAATTATTTTACATGTATATTTAATATTCAACCATTTGTAAAAAATTGTATGTGTATATATGTGTTACAATGTGCTATTTCAATATATGCTTATGCTGTGTTATGTTCAAATCAGCTTAAAAAGTGTTTCCATAAACATTTTTATTTTTTATGATGAAAACATTGAGTATACTCACTTTTAGTTTTTTGAAATAAATATATGGTACATTATCAATTTAGCCATCCTCCTGGGCAGTAAAACCATATCTTCTTGTTCTGTATCCAGCTGTAACATAGAATCCATGAATCAGTTTTCTTGTCCTCCCAATCCTCCTGGTAGCTACAGTTCTACCCTCAATGTCAATTTCATAAGGTTTTCTTACATTTCACATGAAAGAGAGGATGTGCCCCTTACTTAACCTTTCTGTGCCTGGCTTGTTTCACTTACAGTAATGACTTTAGTTATAGCCAAACTGTTGCAAATGATAGGTTCTCCTTTTCATGGTTGAATAGTATTCCAATGTATTCTCCTTTTCATGGTTGAATAGTATTCCAAGGTATATATGTAACACATCTTCTCTATCTCTTCATCAATTCATAGCCTGTATCCATTCCTTGGCTATTGTGAATAGTAGAGTATCGAACAGGAGAGTATAAATGTCATTGGCATAATGATTTCATACCTTCAGGATTTCCAATATTAAGATCGTTATGGTTATATAGTAATTCTGTTTTAAAGCTTTGGAGGTTCTTCAGTACTATATGTAATATATGACTATATTAATGGAGATTTTCATAAACAGTGTAGTGCAAAGACTCCCTTACTCCATAGACTCACTACTGCCTTTTGCCTGTTTGTTGATAGTCATGCTCTTGGGAGTTGGGTGAAATTTCATGTGGTTTTGATTTATATTTCCCTGATTATTAGTGATGCTGAGATTTTTTTTCATGTATCAGTTGGTTATTTCTGTCTCCTCGTGCCCATTTTCATTTGGCTTCTTTGCTAAGTCTCTGGATTTGTATCATGTCACATGTAGGCTTGCCCGTGTTTTTATCCTGTCTCATAGGTTTTTCCTGTTCTGATGATTGGAACCTTTACTGTTTAGAAACTTTTTAGTTTCCCATAATGCCACTTGTCTGCCTTTGCTTCTATTTTCTATGCTTTTGGAATTTATCCAAGAACAAAACAAAAACAATTGGGGGAAAAAAAAAAAAAACCTGTTCCACTTCAATGCTCTGAAAGTTCTTCCCAGACTGGGCCATCTCCCCAGGCCCTGTGAATCTTCTGAAAAACCAGTTATTCCTGGTCTCCTTCATCTTTTGTATTGATGTCTGTTTTGCTTAGCTCTGTTCTTTGTTATTTCTTTTCTTCTGCTTTAGTTTTCGGTTTGATTTGTTGTTGACTTTTTTTTAGGTTTTTAAGATACAATGATGGTTTATTGAAGTCTGCTTTCTTAAAATGTACACTTTGAATACTATAAACCTCAGCTTTGATACTATGTTTGTTGTATCCTATATATTTTAATATCTTGTGTCTCCACCTTCATTTGTTACAAGAAAAAGAATTTAATTTATTTATTTTATGTATGTGAGTACACTGTTGCTCTCTTCAGACACACCAGAAGAGGGCATCAGATCCCATTACAGATGGTTGTGAGCCACCATGTGGATGCTAGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAACCATGGAACCATCTCTCCAGCCCCTTAAGAAAAAATTTTAAATTTCTTTTTTGGTTTCATCTTTGATCCATTGTTTGGGTTGTTTAACTTTCATATATTTACGTAGTTTATTAAGCTCTTTATTTTCTAGTTTTATTGTACTCTGATCAGAATAGCTAATTGACATGATTTCTAACTTTGAAATTTATTGGAACTTGTTCATGTCCTATTCATTTATCTATCATGAAGTACGTTCCATATATTGGGAAGAAGTGGGAAGCAGGTTGGTAGAAAATAGAAGCAAAGGCAGACAAGTGGCATTATGGGAAACTAAAAAGTTTCTAAACAGGCAAGAGGACCACAAAACCACATTTTATTCAAAATGTCATAATAGTATGAAACATTATGTACTGAGTTAAAAATATTTTAAGAAGAAAATTGTTTATTTGGTAGCTGTTTGAAGTTTTGTAGGTACCTATTAGGTCGTTTGTTTTAGGATACAATTTAAATTCTGGATTTTGTTGTTGTTACTGATATCATGTATGGGTCACGTGGGCGTTGTTCAAACTGGGGTTTTCAGCTGTCCCTATATTGAAATCCATCACTGTGTTTCTGAATGCTTGTTTTTAATAAAGTATTTGAGGGCTCAGATATTTGGTCTCTCTCTCTCCCTCTCCCTCTCTCTCTCTCTCTCTCCCTCTCCCTCTCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTGTGTGTAAAATATATATTTTTCTTTTGTACAGCTTGTCCCTTTAGTTTGTTTGTTTATTGGGGTGGGACACACACGCCTACACACCACTATGGAAATCGAGAAGTCAGAGCACAGTTTGAGGGAGTTGGTTCTTCCCTTACATGTGTGATCTGGACATCTAACTCAGGTCATCCGACTTGGAAGGAAGCACCTTTACCTTCAGAATCATTTTGCTGACCCCAGTCCTTTTGTCATCATATAATGAGTCACTTCGTTTCCTTTTACGGCTTTTGATTTTAAGTCTATTTTACCTGATATTCCATATAGGGATGTAGTAAGTTGATTGTATATAGTTAGGTAATCTTAATCCATTCAGCCATTCTGTGTTTTCCTTTTAATCGATGCACATTCCAGCTAACTATTGGAATGTAGTGCCTTACCGCAAACAATTTTGTGGCTTGTTTTCTAGTTTTATTAAGGTCTTATCTACCTCGCTTATGGTCTCATGTATGGTTAAGTGGTTTGCTGTTATGACGGATTTTGATCTGTTGCTTTTTACTTTGTTTGCCTATCCTTGGTTTTTGCTTTGTGGTTACCAAGAAGCTTCAAGAGTACATTTTTTTTGGTAAGAATCAACATTAAGATATTAAGAGATGGGCCTATGATTAGAATGCTAAGAAGCAGAAAGAGAAAATACACTAGTAAGAAAACTATACCTGTATTCCTTCCCTGCTCCATTGAAAATATTTGCTATCTAGTTTTACATATCTTTATATTGCCTGTCTCTTAGCATCTTACCATGGTTGCTATTCTTTTTAATTGTTTTGGTTTTAGTAGTTTTTATCCTAAAGACATGGATGGTTTATTTAATATTTATGTTTACAATACTAGAGCATGCTGAATTTGTTTATAATTACCATTGACAATGAAACTTACTTAGTAAACATTTTCCAGTCCTTTCAGTTAATATTAATTTTTATAGTGTGACAAATTGAATAGCTGGCTTTTATTTCTGTTCAACAG
Seq C2 exon
GCGGCCTTAGTAGATATCAATTGTGTTAAACATATCATTTATGTGGATAATAAGACTATCAATAGAGCAGAGTACCCTGAGGGGCTTGAAATTCACAGCATGCAATCAGTAGAGGAGCTGGGAGCCAAGCCAGAAAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031278-Acsl4:NM_019477:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.149
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0050123=AMP-binding=FE(7.5=100)

							
A:
NA

							
C2:
PF0050123=AMP-binding=FE(9.6=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000033634





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000108524, ENSMUSP00000108525, ENSMUSP00000108528
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chrX:109681137-109681265 
LOW PSI
HsaINT0002916
(ACSL4)
Human
(hg19)
chrX:108924366-108924494 
LOW PSI
HsaINT0002916
(ACSL4)
Rat
(rn6)
chrX:113620704-113623844 
LOW PSI
RnoINT0012387
(Acsl4)
Cow
(bosTau6)
chrX:62506930-62507046 
LOW PSI
BtaINT0013094
(ACSL4)
Chicken
(galGal4)
chr4:13745122-13745212 
LOW PSI
GgaINT0068012
(ACSL4)
Chicken
(galGal3)
chr4:13887902-13887992 
LOW PSI
GgaINT0068012
(ACSL4)
Zebrafish
(danRer10)
chr14:28138541-28140380 
LOW PSI
DreINT0025525
(acsl4a)
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"