HsaINT0000817 @ hg19
Intron Retention
Gene
ENSG00000064687 | ABCA7
Description
ATP-binding cassette, sub-family A (ABC1), member 7 [Source:HGNC Symbol;Acc:37]
Coordinates
chr19:1061781-1062312:+
Coord C1 exon
chr19:1061781-1061887
Coord A exon
chr19:1061888-1062170
Coord C2 exon
chr19:1062171-1062312
Length
283 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CCCGGCGCCCCCATCCCCAGCGT
3' ss Score
6.99
Exon sequences
Seq C1 exon
TGTTTTGGGCTGCTGGGTGTGAATGGAGCAGGGAAGACGTCCACGTTTCGCATGGTGACGGGGGACACATTGGCCAGCAGGGGCGAGGCTGTGCTGGCAGGCCACAG
Seq A exon
GTGAGGGGTGCCAGGTAGGGTCAGGGTGGGGCAGGGTTGGCCCTGACGTCCTTGTGCTTCCCCACCCCTCCACCTCCAGTGAATGGACTGGGCTCACTGCCCCACACCTGCATGGTCTCTGAGACCCCTGCACCTCTACCTCCCACACGCGGACCAGGCCCTGAGACACCCCTGTCCCTTATCAGCGTGGCCCTGGATGGGTGGGCCCTGAGACCCCTGTGTTAGCCACCAGTATGGTCAGGGACTAGCCAGCTCTCTGAGCCCCCGGCGCCCCCATCCCCAG
Seq C2 exon
CGTGGCCCGGGAACCCAGTGCTGCGCACCTCAGCATGGGATACTGCCCTCAATCCGATGCCATCTTTGAGCTGCTGACGGGCCGCGAGCACCTGGAGCTGCTTGCGCGCCTGCGCGGTGTCCCGGAGGCCCAGGTTGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000064687-ABCA7:NM_019112:41
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(24.1=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(32.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTTTGGGCTGCTGGGTG
R:
CGCAAGCAGCTCCAGGTG
Band lengths:
213-496
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)