HsaEX0000224 @ hg19
Exon Skipping
Gene
ENSG00000165029 | ABCA1
Description
ATP-binding cassette, sub-family A (ABC1), member 1 [Source:HGNC Symbol;Acc:29]
Coordinates
chr9:107578736-107581164:-
Coord C1 exon
chr9:107580944-107581164
Coord A exon
chr9:107579507-107579585
Coord C2 exon
chr9:107578736-107578777
Length
79 bp
Sequences
Splice sites
3' ss Seq
CTCTGGGGTTTCTTATTCAGGTG
3' ss Score
9.82
5' ss Seq
AAGGTTTGC
5' ss Score
5.42
Exon sequences
Seq C1 exon
GCCGCACCATTATTCTCTCTACACACCACATGGATGAAGCGGACGTCCTGGGGGACAGGATTGCCATCATCTCCCATGGGAAGCTGTGCTGTGTGGGCTCCTCCCTGTTTCTGAAGAACCAGCTGGGAACAGGCTACTACCTGACCTTGGTCAAGAAAGATGTGGAATCCTCCCTCAGTTCCTGCAGAAACAGTAGTAGCACTGTGTCATACCTGAAAAAG
Seq A exon
GTGGTGCCTGAGCTTCCCCCAGCTGGGCAGAGTGGAGGCAGAGGAGGAGAGGTGCAGAGGCTGGTGGCGCTGACTCAAG
Seq C2 exon
ACCAGAGATGAACATGTGGAATGACCTAAACACCTGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165029-'33-33,'33-32,35-33
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGGAAGCTGTGCTGTGTG
R:
CCAGGTGTTTAGGTCATTCCACA
Band lengths:
183-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)