Special

MmuINT0132600 @ mm9

Intron Retention

Gene
NA
Description
NA
Coordinates
chr17:3185064-3185874:+
Coord C1 exon
chr17:3185064-3185164
Coord A exon
chr17:3185165-3185760
Coord C2 exon
chr17:3185761-3185874
Length
596 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
AAAGGACTTTTCTCTCATAGATG
3' ss Score
6.41
Exon sequences
Seq C1 exon
TATGCAGCACTACTCTCTGGGTTGGCCAAGTGGACAAGAAGGCTACACAGCAAGATTTAACCAACCTTTTTGAGGAATTTGGACAAATTGAATCCATTAAT
Seq A exon
GTGAGTATCTCTTGAGCACTGACAGTGTGGGCTTTCACTCTCTTTACTTCCCTTTCACCGGTGATCCTCGCTGAGTCTGACGTGTCCGACATGGTGATTCTCAGCTGGACACGATTTGTTCACTTTGTTCAGTCTTCTGTTTGCTATGCTCCTGAATTTGCAAAATATTCCTAGGGGTTTTATAGCAGTATGGCACCTCACCTAATTTCTTCAAGCCCTAAGTGTTTGTTAGCAAGAGCCCTTTCCTCTCCCTGTCTTGTCCCTCCCTTTCTTTCGTTTTACCTGCCAGCTGAGAAATGGTTTTTTGTTACAGTAGTAAGCTCTGTTTCTGTAGGCGAGGAACTAATAACATGTATTCAACATTTCACCTTTATTATGGCTTAGAATGGAAGCCGAATCAGGGTGGATTATGGGGCTTATTAAAAGTGAATAATAGATTGCATGTGCATTGTATCAATAAACAGAGTTAGAGAAAGAAAGAGAATTAATTTGGTGGTTTGGTCGGTTATCATACATATTCAGTTTTATGAGAAGCAAATATAGGAATGAATTTCCATCCTTCTGCTCTTTGTAAAGAAAGGACTTTTCTCTCATAG
Seq C2 exon
ATGATTCCACCCAGGGGCTGTGCATATGTCTGCATGGTTCATCGACAAGATTCATTTCGGGCTCTTCAGAAACTGAGTTCAGGATCCTATAAAATTGGTTCCAAGGTCATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
-Rbm16:NM_134123:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
No protein impact description available





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
NA

							
A:
NA

							
C2:
NA

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000132196





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000076024, ENSMUSP00000129436
  



Associated events






Conservation


Human
(hg38)
chr6:154815817-154818478 
LOW PSI
HsaINT0138311
(SCAF8)
Human
(hg19)
chr6:155136951-155139612 
LOW PSI
HsaINT0138311
(RBM16)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr9:92857763-92860162 
LOW PSI
BtaINT0128930
(SCAF8)
Chicken
(galGal4)
chr3:49626733-49628555 
ALTERNATIVE
GgaINT0081295
(SCAF8)
Chicken
(galGal3)
chr3:52248258-52250080 
LOW PSI
GgaINT0081295
(SCAF8)
Zebrafish
(danRer10)
chr17:48854646-48857013 
LOW PSI
DreINT0131086
(scaf8)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
ATGCAGCACTACTCTCTGGGT

				
R: 
TGACCTTGGAACCAATTTTATAGGA

				
Band lengths: 
209-805

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






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