HsaINT0000808 @ hg19
Intron Retention
Gene
ENSG00000064687 | ABCA7
Description
ATP-binding cassette, sub-family A (ABC1), member 7 [Source:HGNC Symbol;Acc:37]
Coordinates
chr19:1056329-1057083:+
Coord C1 exon
chr19:1056329-1056498
Coord A exon
chr19:1056499-1056905
Coord C2 exon
chr19:1056906-1057083
Length
407 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
TCTCATGTCTTCACCTCCAGGAT
3' ss Score
10.91
Exon sequences
Seq C1 exon
ATCTGGTTCAACAACAAAGGCTGGCACTCCATGGTGGCCTTTGTCAACCGAGCCAGCAACGCAATCCTCCGTGCTCACCTGCCCCCAGGCCCGGCCCGCCACGCCCACAGCATCACCACACTCAACCACCCCTTGAACCTCACCAAGGAGCAGCTGTCTGAGGGTGCACT
Seq A exon
GTGAGTCCCTCCACCCTGCATGTCCTACCCTGCACGTCCTACCCTGCCTCCATTTCTCTGTCGTTTGGGGTGGTGGGAGCTGGATTTGAACCCTGACACACTCTTGCTTTATAAATGGGGGATAGAAACTGTTCCTCTGCTCCCTAAGCCAGGGAAATGGGACCTCCTCAGACTCAGCGGGCCCCAGCCTCCCCCACACATCCTCATCCCACCAACCTTTATCCTGCCTGAGACCTGTACAACCTCTGCTGCCAAATCCCAGGCACCCTCATCCCTAAATTGCCCCTGCCATCTCTGCCACTGCTGACTGCCCCATAGACCTTTGTCCCATCAATGGCGTGTTCAGCTCTGCTCTGAGCAACCCATGCACCCTCACCCTACAACAGCTCTCATGTCTTCACCTCCAG
Seq C2 exon
GATGGCCTCCTCGGTGGACGTCCTCGTCTCCATCTGTGTGGTCTTTGCCATGTCCTTTGTCCCGGCCAGCTTCACTCTTGTCCTCATTGAGGAGCGAGTCACCCGAGCCAAGCACCTGCAGCTCATGGGGGGCCTGTCCCCCACCCTCTACTGGCTTGGCAACTTTCTCTGGGACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000064687-ABCA7:NM_019112:33
Average complexity
IR-C
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:
PF126982=ABC2_membrane_3=FE(17.6=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(18.6=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:
GGTTCAACAACAAAGGCTGGC
R:
CATGTCCCAGAGAAAGTTGCCA
Band lengths:
344-751
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)