Special

MmuINT0007754 @ mm9

Intron Retention

Gene
ENSMUSG00000051900 | Abca16
Description
ATP-binding cassette, sub-family A (ABC1), member 16 [Source:MGI Symbol;Acc:MGI:2388711]
Coordinates
chr7:127579350-127580281:+
Coord C1 exon
chr7:127579350-127579460
Coord A exon
chr7:127579461-127580163
Coord C2 exon
chr7:127580164-127580281
Length
703 bp
Sequences
Splice sites
5' ss Seq
TTTGTCCAG
5' ss Score
-26.85
3' ss Seq
TCATGATTGTTTCATTGTAGATT
3' ss Score
8.21
Exon sequences
Seq C1 exon
GAGTACCAGCTCATAATGGGGCTTAGAAATTGGATCATCTGGATTGGTTATTTCTTCACGTTCTTCCCGTTATATGTCATCATTATCCTTTTGATATGTATATTACTCTTT
Seq A exon
GTCCAGGCAAGTATCCAGTTTCATGCTGTCTAACAGATATATAATTAATTGCTTATATAATATTGAATTTTTACTAGCTATAGAAGTTTTTTTAAAAAAACAAACATAAGGAGAAAGAGACAAAATTCTTTTAGTGATATGTTTAACTCAGGTCTTTAAAAATATTCTTTTACCATATAACAATTTTTAAAATAGTGTTTTTGTTATTTTAAAAATCTAATGTGTTTTGTGTTACTGTACATCCCAATTCTGACATGAAGGTTTTTAATGGAAAAATATACTATTTTTGACAATACTATAGTTTTTATTTAAATTTAAACTGTGTTCTTAAAAATAAAATTGAATTCCATAGTCATTCAAGCTGTATTTCAGGTGTTCTATAAATACATAGGACAAATGTGTACTCTAACAGGTAAATGAGTTTCAGTGAGTTGAGTCTGCTACACAATCCAGTAAATGGAGAGATATCACGCTATGGACTTACTGGTCTCAGGGTTCCAGTAGAATCCATTGGATTTTGTTTTTGTTTTGACCTTACTAGAAAACTGAGATGCTGCTGAGTTTCTCAGCAAGACTTTAACTTCCTGTCTTTGGGTCTCACCAGCTGAGTGTGGCGATGTGTTTCAGTAGGAACCATGCCTTTGTCTCTTACCTTGTGTTTATGTGACATTCCCTATCTGATGTCATGATTGTTTCATTGTAG
Seq C2 exon
ATTGTAGAGGAGCCAATCTTGCGCTACAGTGACTGTAGTTTCATCTTTGTCTTTCTTACATGTTATGCTATCGCATCCATATGCTTTGCCTTTATGGTTAGCACGTTCTTCAGTAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000051900-Abca16:NR_024051:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
No protein impact description available





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF126982=ABC2_membrane_3=FE(28.8=100)

							
A:
NA

							
C2:
PF126982=ABC2_membrane_3=FE(9.1=100)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000114975





     
                   









    
Main Skipping Isoform:
ENSMUSP00000112736





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000061094
  



Associated events






Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr16:21349888-21350144 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr25:19663859-19664265 
BtaINT0006903
([1])
Chicken
(galGal4)
chr14:13583112-13583670 
LOW PSI
GgaINT0016414
(ABCA3)
Chicken
(galGal3)
chr14:14348495-14349053 
LOW PSI
GgaINT0016414
(E1BVQ5_CHICK)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
AGTACCAGCTCATAATGGGGCT

				
R: 
ACTGAAGAACGTGCTAACCAT

				
Band lengths: 
224-927

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]










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