HsaINT0000624 @ hg19
Intron Retention
Gene
ENSG00000107331 | ABCA2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:HGNC Symbol;Acc:32]
Coordinates
chr9:139914788-139915513:-
Coord C1 exon
chr9:139915146-139915513
Coord A exon
chr9:139914948-139915145
Coord C2 exon
chr9:139914788-139914947
Length
198 bp
Sequences
Splice sites
5' ss Seq
CCGGTAGGT
5' ss Score
9.39
3' ss Seq
CCCCCTGTCCCCTACCCCAGCAC
3' ss Score
7.87
Exon sequences
Seq C1 exon
CTGGGCCTGGATGCCCCCAACGGCTCGGACTCCTCGCCACAGGCGCCACCCCCACGGAGGCTGCAGGCGCTTCTGGGGGACCTGCTGGATGCCCAGAAGGTTCTGCAGGATGTGGATGTCCTGTCGGCCCTGGCCCTGCTACTGCCCCAGGGTGCCTGCACTGGCCGGACCCCCGGACCCCCAGCCAGTGGTGCGGGTGGGGCGGCCAATGGCACTGGGGCAGGGGCAGTCATGGGCCCCAACGCCACCGCTGAGGAGGGCGCACCCTCTGCTGCAGCACTGGCCACCCCGGACACGCTGCAGGGCCAGTGCTCAGCCTTCGTACAGCTCTGGGCCGGCCTGCAGCCCATCTTGTGTGGCAACAACCG
Seq A exon
GTAGGTGGGCGGCAGGGGAATGGGGGTGAGGAGGACAGCCAGGGGCAGGGCGTGAGCCCTGAATCTAGGCTCTGGCTCTGGAGGTCTCATTTGGCGCCCTGCCCTGTGCCCCGAAGTCCTGCCCCATCCCGATGCCCCTCCCACTCTCGCGGCCCTGCCCCCTAACGGCCTGGCCCGGCCCCCTGTCCCCTACCCCAG
Seq C2 exon
CACCATTGAACCCGAGGCGCTGCGGCGGGGCAACATGAGCTCCCTGGGCTTCACGAGCAAGGAGCAGCGGAACCTGGGCCTCCTCGTGCACCTCATGACCAGCAACCCCAAAATCCTGTACGCGCCTGCGGGCTCTGAGGTCGACCGCGTCATCCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107331-ABCA2:NM_001606:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.528 A=NA C2=0.037
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGTCATGGGCCCCAAC
R:
TTTGGGGTTGCTGGTCATGAG
Band lengths:
255-453
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)