RnoINT0009961 @ rn6
Intron Retention
Gene
ENSRNOG00000018126 | Abca1
Description
ATP binding cassette subfamily A member 1 [Source:RGD Symbol;Acc:631344]
Coordinates
chr5:69892287-69892633:-
Coord C1 exon
chr5:69892585-69892633
Coord A exon
chr5:69892401-69892584
Coord C2 exon
chr5:69892287-69892400
Length
184 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
TGCTTCTGTTTCCTATGTAGACG
3' ss Score
8.93
Exon sequences
Seq C1 exon
ATATTCCTCAAAGTGGCTGAAGAGAGTGGGGTGGATGCTGAGACCTCAG
Seq A exon
GTAACTTGGCTGAGTGGCTTGCACACTGGCTAGGCTTTCTGTAGACTGTCCGAGCTGACCCCTGTTGGTCTTTCTCTTTGCATTGGTCTGATGCAGTCTCAGCTTTAGTGTATGGGTTTGCTCTGGAAGGTTTGTTGTTACTACAGATAAATAAACCTCGGGATTGCTTCTGTTTCCTATGTAG
Seq C2 exon
ACGGTACTTTGCCAGCAAGACGAAACAGACGGGCCTTCGGTGACAAGCAGAGCTGTCTGCACCCATTTACAGAGGACGATGCTGTGGATCCGAATGACTCTGACCTAGACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018126:ENSRNOT00000024564:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.235 A=NA C2=0.462
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATATTCCTCAAAGTGGCTGAAGAGA
R:
TGGGTCTAGGTCAGAGTCATTCG
Band lengths:
162-346
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]