HsaINT0000807 @ hg19
Intron Retention
Gene
ENSG00000064687 | ABCA7
Description
ATP-binding cassette, sub-family A (ABC1), member 7 [Source:HGNC Symbol;Acc:37]
Coordinates
chr19:1056065-1056498:+
Coord C1 exon
chr19:1056065-1056242
Coord A exon
chr19:1056243-1056328
Coord C2 exon
chr19:1056329-1056498
Length
86 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGA
5' ss Score
6.03
3' ss Seq
TGACCTTGACCCCCACCCAGATC
3' ss Score
5.19
Exon sequences
Seq C1 exon
ATACGGAGGCTTCTCGCTGGGGGGCCGAGACCCAGGCCTGCCCTCGGGCCAAGAGTTGGGCCGCTCAGTGGAGGAGTTGTGGGCGCTGCTGAGTCCCCTGCCTGGCGGGGCCCTCGACCGTGTCCTGAAAAACCTCACAGCCTGGGCTCACAGCCTGGATGCTCAGGACAGTCTCAAG
Seq A exon
GTGGGAACTGGGGGGGCAGGTGGGCGTCCTGTCACAGCAAGGTCCAACCCCATTGCTCTGACCCTATGACCTTGACCCCCACCCAG
Seq C2 exon
ATCTGGTTCAACAACAAAGGCTGGCACTCCATGGTGGCCTTTGTCAACCGAGCCAGCAACGCAATCCTCCGTGCTCACCTGCCCCCAGGCCCGGCCCGCCACGCCCACAGCATCACCACACTCAACCACCCCTTGAACCTCACCAAGGAGCAGCTGTCTGAGGGTGCACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000064687-ABCA7:NM_019112:32
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.150 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PU(12.3=65.0)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(17.6=100)
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:
TGAAAAACCTCACAGCCTGGG
R:
GGTTGAGTGTGGTGATGCTGT
Band lengths:
180-266
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)