Special

MmuINT0010611 @ mm9

Intron Retention

Gene
ENSMUSG00000052155 | Acvr2a
Description
activin receptor IIA [Source:MGI Symbol;Acc:MGI:102806]
Coordinates
chr2:48753998-48758784:+
Coord C1 exon
chr2:48753998-48754128
Coord A exon
chr2:48754129-48755113
Coord C2 exon
chr2:48755114-48758784
Length
985 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
GACTATTCTTCTCCTCTTAGGGA
3' ss Score
9.61
Exon sequences
Seq C1 exon
GACCCGTAGATGAGTACATGTTACCATTTGAGGAAGAAATTGGCCAGCATCCATCTCTTGAAGATATGCAGGAAGTTGTTGTGCATAAAAAAAAGAGGCCTGTTTTAAGAGATTATTGGCAGAAACATGCA
Seq A exon
GTAAGTTTATACACTTATTTTCCATTTGAGATTTCAAGAAAACACTTTTAGGAGAATGATCAATTCCTTCAGGGAAGGTGGTCTTCACACAGGGGCTTTGTACCTAAGCTTAGAGGCAGAAGGCTTTGTCTGAAGTCCCAGAGCCGTATAGAGCAGGTTCCTCTTACTTCAGCAATCTAATTAGGTTCGAGTATCTCCTGTTTTGAAAGCTGTATGAGGAAACATGCTGGCTCTGAACCCATGGAAAGCTGGATAGTCTTACTATTACCTTCTAGTAAATGTCATTTTAACACTTACTAAGCACCGAGTTGTCTCTATTCCATTTGAGTTGTCTCTATTCCATGAAGTCTTAAGTCATTTCTTTCAAGACTTCACTTTACAGTTAGAGTGGACAGAACAGCATAAAATTGTGCCGGCAATTTGGTGTTAATATCACTAGAAACTCAAGTAGAAATAAGTAACTTCATCCTGATACCAGAGATCTGACTCAAGAGTGGCCTTTTAATCTTAAATGAAAGGGAGAAAAGCTATTATCAATGTAAGAAAATGATGTTAAAGAAACAAAAACAACAACAAAAAACCTTGTAGCCCACATCAGACTTGTGAGTCTACTTGAAAAGCTCAAGCATTGAAATGATCAGATTTGTAAACATGGATTTTTAGAACTTTAAAACATACCTGTTGTAAATCACTAATGCTTGGAAAAGTGACTTCTCTTAATGGTATGTAAAATGACATTCAATAAAAATGAATGATCATCTAGCAATTGTATCTCACTCACATGCAGAGGCAGAAAGATCAAGACTTTGAGATAAAGGCTGGCTTGCATAATACACCCATTAAAAGGATCCAGAGTGGGTACGGGTCACACTCTGCTCATCTTGAAACCATTGTCAATGGAAATAGCTATTTCATTATGACATTATTAGCCTGTTTCCTGTCAGAAAACAATAGCTGTTAAGTTTGACTATTCTTCTCCTCTTAG
Seq C2 exon
GGAATGGCAATGCTCTGTGAAACGATAGAAGAATGTTGGGATCATGATGCAGAAGCCAGGTTATCAGCTGGATGTGTAGGTGAAAGAATTACTCAGATGCAAAGACTAACAAATATCATTACTACAGAGGACATTGTAACAGTGGTCACAATGGTGACAAATGTTGACTTTCCTCCCAAAGAATCTAGTCTATGATGGTGGCACCGTCTGTACACACTGAGGACTGGGACTCTGAACTGGAGCTGCTAAGCTAAGGAAAGTGCTTAGTTGATTTTCTGTGTGAAATGAGTAGGATGCCTCCAGGACATGTACGCAAGCAGCCCCTTGTGGAAAGCATGGATCTGGGAGATGGATCTGGGAAACTTACTGCATCGTCTGCAGCACAGATATGAAGAGGAGTCTAAGGGAAAAGCTGCAAACTGTAAAGAACTTCTGAAAATGTACTCGAAGAATGTGGCCCTCTCCAAATCAAGGATCTTTTGGACCTGGCTAATCAAGTATTTGAAAACTGACATCAGATTTCTTAATGTCTGTCAGAAGACACTAATTCCTTAAATGAACTACTGCTATTTTTTTTAAATCAAAAACTTTTCATTTCAGATTTTAAAAAGGGTAACTTTTTATTGCATTTGCTGTTGTTTCTATAAATGACTATTGTAATGCCAACATGACACAGCTTGTGAATGTGTAGTGTGCTGCTGTTCTGTGTACATAGTCATCAAAGTGGGGTACAGTAAAGAGGCTTCCAAGCATTACTTTAACCTCCCTCAACAAGGTATACCTCAGTTCCACGGTTGCTAAATTATAAAATTGAAAACACTAACAGAATTTGAATAAATCAGTCCATGTTTTATAACAAGGTATTACAAATTCACTGTGTTATTTAAGAAAAAATGGTAAGCTATGCTTAGTGCCAATAGTAAGTGGCTATTTGTAAAGCAGTGTTTTAGCTTTTCTTCTACTGGCTTGTAATTTAGGGAAAACAAAGTGCTGTCTTTGAAATGGAAAAGAATATGGTGTCACCCTACCCCCCATACTTATATCAAGGTCCCAAAATATTGCATACTTAAGTAGTACTTTTTTCTTTAAGGTGTGCTGTGTTTGGGAAATATTTGAAAACATAAAGCATGATTTAAAATTTTTTAAGTGAGCTGTGACACTGGAAAGCTCTTCATTTTTCTTTTAAAATAGATTTTTTTTTCCTATTTATATATATAAAATGACGGTGTATTTCTTCTTTTCACCAAACAGTGTGTGGGATATTCTTATCACTGTTTTATGATCACCTCAGGAAGTGTCATTACTCAGAATTCTTCACTCTGCTTCTAGACTTGTAACTTTATCACTGTACTGCGTGGTGCCATCTTGTCAGAGTAATATTTGATGTCTGTGATATGGAGAGAATTAGCTTAGGATAAAGGTAGTGACCTTTAAGAACAGATTTCAGATATTACTGCTTTAAGACAAATCAGGGATAACAAGTTGAACTTATAATATGCAATGACATTAAGAGGTAACCAGTGCTGGTCTAAGGAACACAACCCAGCTTCCTCCCCAAATTACTTTTACAGCTAATTTTAGATAGTTCATGCCTTATCCTTACGAAGAAAGTGGAATTGATGGCATGTAGGTACCAGAGTGCTTTAAAAAACATTATTACATTAGAATATAATTGGATCTTTCCTAAAGCTTGCACGGGCCCAAGTAAAAAATTAATTCCCTGAATTTTAAATTACCAACAAATAGCCAGTATTATGTTATATACATTTTTGTTGAGTCACTTTAACATCCATACATTAACTTTATAAACTTCTACGTTACTATCAGGAGCTCACTGTGAATGCATTATCTTCAGATGGTTAAGACATCAGACACTACATTTTACATATAATGTGCACTAATCTCTGGGGAGAATAATTACAAACAATACATAGGTCAACAGACTTTAAGTGGGGAGGATAATAGCATTCTTGTTTGTATGCCACACACCATAGAGAACTGTGCGTTGTCTCTGTACCCAAGGTCTCACTGTATTCGTAAGGTTGCCAAGTTCAGTGTTCATTGTTTTGATTTCTACATATTTGGCCCCTCAAACTCTTGATATAGGTTTGCTTGCACTTGTAAGCTAATCAAGGAAAACCATAAGAAAATATGCATATAAGGAAATTATTCCTCTCCATAAGCAAACTACTACTGGTTTTAAACATTCAACCTCCTTTAAAAGCTGATAAATGAGGGATAATACGACTGTTCGGCTTAAGAAAGCACTACAGATAAATTTTACCAAGACTGGTTCATGATATAAGATGCTTTGTCTTTATGCTAAAATTTTTTTTTAAGGAAATCTTGGGTATTGTATGTAAATCTAGCTTATCAATTTTAAAACTTGTATTCTCTTAAGAACTACATTAACAGAAAGCCTTTTTTATAAGCAGTAACGTTAAGAATGTTCCAGTGACTACCTGCCCTTATACCTAGTCTTGTTAAAACTTTCTTTTGCAGGGCATTTTAGTGTTTGGTTTACAGTAAGTGCAGAATGGGCAGATAAAAAGATTGAGTTAGGGACATTGAAAAAGAAAGATCAAAGAATGAAAACTTTTTTTTAGGGAGATGGCAAACTTGGACCCCTGTATATCTTCATGTGTATGGTGCTCACGATGTCTTGTACTTTGCCTTTCTGATACCCACCAGAACTGCTGCTCTTACTCTACCTTGCCCAAATCTCCCATGTGAGAAATGCTTTATGATCAACTGCCATAGGACTGACTGATGGAGTAACCAGTGTTTGAATTTATTTGAAGTCTATCTATGCCCTGCACAGATCTTGTATGTATTTTAGATGCTAGGAGTTTTAGCATGTGATTTGTGACTCTTGTTTGGATGTTTATTACAGGTACCTTGTGAATTCCAGAACAGAGACTGTGCCTCACAATTATTGGTCCCATGAACTTGCACTATCTTTCATGGTAATATTCTAAAAATATAACCAGGAAAAACAAAAAACAAACACCTTTGGACTTAAAGACAGAATTATGTATCACACACAATTATGAAAACATCGCTTCTGACCCTTTTTCTTATCCTTAATAATTAAGTCACATTTAAGTAAAATTCAAATGGTTGGGAAAAACAAAACAAAACAAAACAAAACCAAACTCCTCACCAGATAGATGGTAGTTTAGTGGAATAGAATGATTACTGTTTTTTAAAAAAAAATGCTTCATCAGATATTTTCCAGTTTCTCTTTTTTACTTTTTTGAAAAATTACTTTTTAGGAAGATTTGGTATAATGTGCATAAAATTATTTACAATTTATGGACAAAGATACAAGTAGCATCTTGATTAAACATCATTTACCTCAGATATTCAACCAGCAGTACGTTTTTTATGCAGTCTCAACCCGTATCTCCCTATTTGTTACCTCTCAAAATATTGGTAAACAATTATTTTAGCTTTACTCTGTATTTCTTGTCAGTGTTTTGGGCACAGGTTGTTGTACTACTGTCATATTGTACTTGCTATTTTTTTTTTCTGCAAGTATTTAACAGAAAGCTAAAAATGAAAAAAATCCCCATAAAATCCCACCTTGAATAAGTGATTGTTAAATATTGTACAAATAAAATGTATGCTATCCCCATTCCATCCCCATGTTAAATAAAAAATGAATATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052155-Acvr2a:NM_007396:10
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=0.031
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0006920=Pkinase=FE(14.9=100)

							
A:
NA

							
C2:
PF0006920=Pkinase=PD(10.1=44.6)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000067305f4803A





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000067305
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr2:147926162-147927079 
ALTERNATIVE
HsaINT0003370
(ACVR2A)
Human
(hg19)
chr2:148683731-148684648 
ALTERNATIVE
HsaINT0003370
(ACVR2A)
Rat
(rn6)
chr3:33030775-33031745 
LOW PSI
RnoINT0012782
(Acvr2a)
Cow
(bosTau6)
chr2:48384293-48385202 
ALTERNATIVE
BtaINT0013487
(ACVR2A)
Chicken
(galGal4)
chr7:34053330-34054335 
ALTERNATIVE
GgaINT0048444
(ACVR2A)
Chicken
(galGal3)
chr7:36180933-36181938 
LOW PSI
GgaINT0048444
(AVR2A_CHICK)
Zebrafish
(danRer10)
chr6:885371-885807 
LOW PSI
DreINT0025830
(acvr2aa)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TGAGGAAGAAATTGGCCAGCA

				
R: 
CCAGTTCAGAGTCCCAGTCCT

				
Band lengths: 
343-1328

			

		

	





	
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"