HsaINT0000619 @ hg19
Intron Retention
Gene
ENSG00000107331 | ABCA2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:HGNC Symbol;Acc:32]
Coordinates
chr9:139902868-139903320:-
Coord C1 exon
chr9:139903183-139903320
Coord A exon
chr9:139903075-139903182
Coord C2 exon
chr9:139902868-139903074
Length
108 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGC
5' ss Score
5.2
3' ss Seq
ACGCCTGCGCCACCCACCAGGTG
3' ss Score
5.92
Exon sequences
Seq C1 exon
GAGCGGCACCACACAAAGGTGCAGTACCAGCTCAAGTCGGAGCACATCTCGCTGGCCCAGGTGTTCAGCAAGATGGAGCAGGTGTCTGGCGTGCTGGGCATCGAGGACTACTCGGTCAGCCAGACCACACTGGACAAT
Seq A exon
GTGAGCGCCCCAAGGGCACTGCGCACCACACCTGCCCCTCCCCTCACCCGCCCTGCCCCTCCTCACCCCAGACCAGCCCCCTCCCCACACGCCTGCGCCACCCACCAG
Seq C2 exon
GTGTTCGTGAACTTTGCCAAGAAGCAGAGTGACAACCTGGAGCAGCAGGAGACGGAGCCGCCATCCGCACTGCAGTCCCCTCTCGGCTGCTTGCTCAGCCTGCTCCGGCCCCGGTCTGCCCCCACGGAGCTCCGGGCACTTGTGGCAGACGAGCCCGAGGACCTGGACACGGAGGACGAGGGCCTCATCAGCTTCGAGGAGGAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107331-ABCA2:NM_001606:46
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.176 A=NA C2=0.465
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGGGCATCGAGGACTACTC
R:
TCCTCCTCGAAGCTGATGAGG
Band lengths:
249-357
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)