Special

MmuINT0050136 @ mm9

Intron Retention

Gene
ENSMUSG00000047517 | Dmbt1
Description
deleted in malignant brain tumors 1 [Source:MGI Symbol;Acc:MGI:106210]
Coordinates
chr7:138208578-138210252:+
Coord C1 exon
chr7:138208578-138208610
Coord A exon
chr7:138208611-138209928
Coord C2 exon
chr7:138209929-138210252
Length
1318 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
AAACCACCATGTCTTTCCAGGAA
3' ss Score
7.81
Exon sequences
Seq C1 exon
AGCAGACACCCGTTCCTGATTATACACCAATAG
Seq A exon
GTAAGAAAAGATTGTATAGATCTCGCACTGTAGGTCACAATGCTGATTGTATTCACAGCATCGACTTCCTTGTAACACTTAAGGGCATAGGGTGGTGGGCGTGTGCTGTGAAGACTTAGAGGAGTGGGGATGCCTCCTGACCCTGAGGACGTCCCTCCTGTCAACCCTGTCACTGTCTGTATTTCTCTGCCTGTGGAGGGGATCAGTCAGCCTGCTGTCCCTTGACCTTTCCCTCTCCCTGTGTGTAGAAGTCAGTATTTGTGTGGGTTCCAAAACTCCCCGGTCTCTACATTTAGTATTATGTCAGAAGAGACTCTGGGGTTAGAGTGCTTAATATAAGACAACCTTCCAGAGACTTTTGGTGACAAAATGAGACTGATGACTTTTTTGCGAGGCCATTCTGATTCACTTCAAGTGGGTGCCCAATTGAGAAAGCTGTGTCTTAGTGCACACTGTGTGCAGATATTTGTCCTGTTAAAACTGTTGGGTTGAACTTTGACTTTAATGAAAAGTTCACACCAGGGTCCTAGTGACCAGCAGTGACAAAGCTTGGGGTCCTCTAGTGTGGTCTCATTCCAGACAGAGAGTGAGGTGGTGGTGGCTGTCATGTCACCCGAGCCCATTGGGTCCGAGCAGCTCCTTCAGGTTTATAATTTTATATTGGGTCTGAAAGGAGTTCTTATATAAAAATGAAACTGGTGTTTGTGTGTGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCAGCAGCTGTTGAGAGCCTTTTTCCGGGACCCATGAACTTCTGTTGTGGCAGGAAGCTATCCTTTGCCCCTTTGGTGTCTCATATACCACCTTGCTATGCATCGCCTTTACTGCTGGCAGATATGGGGCATGGTGGAGGTGAATGTGTGCATGTACAGTGTGTGTGTGTGAGGAGTTGGGAGGGCTCTGCATCCTCTCTCTCCTTGAAACCCACTTAATCCTACAGTGCATGGTACTCCAAGGCATAATGGCAAGGTAGAGTAGGTAGACAAGGTATCTTGTCACCATCCAGGGCAGATTCAACCCATGCCAACACAGTGTGTAGAAACATAGGCATCCTGGTGACCAACTTGGTCCTCATGTCTAGAAAAGATGTAGTGACATTGTAGTGAGGGCACAGGGGCCATTGTTAAAGTGAGAGGGTACAGATCTTTACAGGTCAGTGTGGCCAGGATGCAGCAGCAGGAGCTGTTCATGTCCCGTATTGCTTTAAAGTTCATGAGTGAGCTGCCACCAAGTGTACAAGTGAGACATGACCAACAATGGAGAAACCACCATGTCTTTCCAG
Seq C2 exon
GAACAGATTCTGGTTTGGCCGTGAGGCTGGTGAACGGAGGAGACAGGTGTCAGGGTCGAGTGGAGATCCTTTACCAGGGTTCCTGGGGCACTGTGTGTGACGACAGCTGGGACCTCAATGATGCCAACGTGGTGTGCAGGCAGCTGGGCTGTGGCTTGGCCGTGTCTGCCCCAGGAAGTGCCAGGTTTGGACAGGGCACAGGGCCCATTGTCATGGATGACGTGGCCTGTGGAGGCTATGAGGACTATCTGTGGAGATGTTCCCACCGAGGCTGGCTCTCTCATAACTGTGGACACCATGAGGATGCTGGAGTCATCTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047517-Dmbt1:NM_007769:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
No protein impact description available





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.750 A=NA C2=0.028
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
PF0053013=SRCR=WD(100=89.9)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000006366





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000006366f6001A, ENSMUSP00000081556
  



Associated events






Conservation


Human
(hg38)
chr12:7433695-7441153 
ALTERNATIVE
HsaINT0030826
(CD163L1)
Human
(hg19)
chr10:124333279-124335914 
HsaINT0048793
(DMBT1)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
chrLGE64:639526-640465 
ALTERNATIVE
GgaINT1001349
([1])
Chicken
(galGal3)
chrE64_random:31444-32022 
GgaINT0000621
([2])
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
AGCAGACACCCGTTCCTGATT

				
R: 
TGACTCCAGCATCCTCATGGT

				
Band lengths: 
348-1666

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]










Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"