HsaINT0000815 @ hg19
Intron Retention
Gene
ENSG00000064687 | ABCA7
Description
ATP-binding cassette, sub-family A (ABC1), member 7 [Source:HGNC Symbol;Acc:37]
Coordinates
chr19:1041830-1042175:+
Coord C1 exon
chr19:1041830-1041971
Coord A exon
chr19:1041972-1042062
Coord C2 exon
chr19:1042063-1042175
Length
91 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGC
5' ss Score
3.28
3' ss Seq
TGCCCTCTCTCTGTCCCCAGGGT
3' ss Score
14.19
Exon sequences
Seq C1 exon
GCCACTTCCCAAACAAGCCACTGCCATCGGCGGGCACCGTGCCCTGGCTCCAGGGTCTCATCTGTAATGTGAACAACACCTGCTTTCCGCAGCTGACACCGGGCGAGGAGCCCGGGCGCCTGAGCAACTTCAACGACTCCCT
Seq A exon
GTGAGCCAGAGGCAGTGGGTGCGGCCGGCCTGCAAACTCGGGGCTGCAGTGCCGGCCGGAACCCCGCCTCCTGCCCTCTCTCTGTCCCCAG
Seq C2 exon
GGTCTCCCGGCTGCTAGCCGATGCCCGCACTGTGCTGGGAGGGGCCAGTGCCCACAGGACGCTGGCTGGCCTAGGGAAGCTGATCGCCACGCTGAGGGCTGCACGCAGCACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000064687-ABCA7:NM_019112:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.083 A=NA C2=0.103
Domain overlap (PFAM):
C1:
PF052976=Herpes_LMP1=PD(39.5=70.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTCCAGGGTCTCATCTGTA
R:
CGATCAGCTTCCCTAGGCCAG
Band lengths:
183-274
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)