HsaEX0000236 @ hg19
Exon Skipping
Gene
ENSG00000165029 | ABCA1
Description
ATP-binding cassette, sub-family A (ABC1), member 1 [Source:HGNC Symbol;Acc:29]
Coordinates
chr9:107651383-107690518:-
Coord C1 exon
chr9:107690216-107690518
Coord A exon
chr9:107665895-107666052
Coord C2 exon
chr9:107651383-107651476
Length
158 bp
Sequences
Splice sites
3' ss Seq
CCTCCTGCTTTATCTTTCAGTTA
3' ss Score
11.12
5' ss Seq
ACAGTAAGC
5' ss Score
5.94
Exon sequences
Seq C1 exon
AGAGCACAGGCTTTGACCGATAGTAACCTCTGCGCTCGGTGCAGCCGAATCTATAAAAGGAACTAGTCCCGGCAAAAACCCCGTAATTGCGAGCGAGAGTGAGTGGGGCCGGGACCCGCAGAGCCGAGCCGACCCTTCTCTCCCGGGCTGCGGCAGGGCAGGGCGGGGAGCTCCGCGCACCAACAGAGCCGGTTCTCAGGGCGCTTTGCTCCTTGTTTTTTCCCCGGTTCTGTTTTCTCCCCTTCTCCGGAAGGCTTGTCAAGGGGTAGGAGAAAGAGACGCAAACACAAAAGTGGAAAACAG
Seq A exon
TTAATGACCAGCCACGGCGTCCCTGCTGTGAGCTCTGGCCGCTGCCTTCCAGGGCTCCCGAGCCACACGCTGGGGGTGCTGGCTGAGGGAACATGGCTTGTTGGCCTCAGCTGAGGTTGCTGCTGTGGAAGAACCTCACTTTCAGAAGAAGACAAACA
Seq C2 exon
TGTCAGCTGCTGCTGGAAGTGGCCTGGCCTCTATTTATCTTCCTGATCCTGATCTCTGTTCGGCTGAGCTACCCACCCTATGAACAACATGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165029_CASSETTE3
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. ATG (>10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCCGACCCTTCTCTCCC
R:
GCTCAGCCGAACAGAGATCAG
Band lengths:
247-405
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)