HsaALTA0000025-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000107331 | ABCA2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:HGNC Symbol;Acc:32]
Coordinates
chr9:139911026-139911576:-
Coord C1 exon
chr9:139911372-139911576
Coord A exon
chr9:139911150-139911190
Coord C2 exon
chr9:139911026-139911149
Length
41 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
CTCCCCTCCCCGACCCCCAGGCA
3' ss Score
8.85
Exon sequences
Seq C1 exon
TCCCTCATGTCCACGACGGCCTTTGGTCTGGGCTCTAAGTACTTCGCGCTGTATGAGGTGGCCGGCGTGGGCATCCAGTGGCACACCTTCAGCCAGTCCCCGGTGGAGGGGGACGACTTCAACTTGCTCCTGGCTGTCACCATGCTGATGGTGGACGCCGTGGTCTATGGCATCCTCACGTGGTACATTGAGGCTGTGCACCCAG
Seq A exon
GCATGTACGGGCTGCCCCGGCCCTGGTACTTCCCACTGCAG
Seq C2 exon
AAGTCCTACTGGCTGGGCAGTGGGCGGACAGAAGCCTGGGAGTGGAGCTGGCCGTGGGCACGCACCCCCCGCCTCAGTGTCATGGAGGAGGACCAGGCCTGTGCCATGGAGAGCCGGCGCTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107331-29-33,29-32-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.076
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PD(26.2=88.4)
A:
NA
C2:
NO
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTATGGCATCCTCACGTGGT
R:
CTGGTCCTCCTCCATGACACT
Band lengths:
138-179
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)