HsaINT0000590 @ hg19
Intron Retention
Gene
ENSG00000107331 | ABCA2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:HGNC Symbol;Acc:32]
Coordinates
chr9:139917393-139918688:-
Coord C1 exon
chr9:139918595-139918688
Coord A exon
chr9:139917513-139918594
Coord C2 exon
chr9:139917393-139917512
Length
1082 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
ACCCTGCCCTCTCCCGTGGGTCT
3' ss Score
-9.66
Exon sequences
Seq C1 exon
TGGGTCCTGGCCTTCGAGATCTTCATCCCCCTGGTGCTGTTCTTTATCCTGCTGGGGCTGCGACAGAAGAAGCCCACCATCTCCGTGAAGGAAG
Seq A exon
GTGAGTGCGGCAGGAGGCCCCAGGCACAGCCGGGGGAGCGCGGCACCTCGCACGCCTGCGCTGTGTGTGCACATCTGCACACGGGTGTCCTGCTCCCGGAGTCCCTGAGGTGCGGTGCCTGCTCCCCTGTGTGGTCCTGGGCCGTGCCTCCTGGCTGGGCTGTGGAGGTCGGGGCTGGCCTGTGGCCGCGAATGATGATGCCAACGCCTCTTCCTGGTGATGTGGGCACTCACTGGTCTCCTCTGTTCTGTTTTGATCCCCCTCCCTCCCCGCATGGTCTCTTGTCCTCGGCTGGCATGCAGTCTGTAAGTGAGCGGCCACCTCCTCCTGGCTGGCCTGGGCAGCAGCTGCGGGGGGCCCATGGGCCGTCCTGGCTTGAGCGCCCTCCCCGCTTGCATTAACAGCCCTCCCGGGCCCCCTGCCGGCCTCAGGAACAGCTGGCTCCAGATGGGGGGTGGCAGGCAGTGAAGTGGGAGGTGGTAGGGAGTGAAAGGCCCGGCCACCTAAAGGCACAGCTGGTGCCTGGGTCAAGCTGAGGCGGCATCTCTCTGCCTGGCCTTGCCTTCTAGGGCTGGGGTGCCTCGGCTTCTGGGCTGAGTCTGGGCTGAGGCTGGGCTGGCCTGGGCTGGGGCTGGAGCGGCCTGGCTACTCTCCCTTCATACTCCTTCAGGCTCTTGCACTCACTCTGCTAACCAGCTGGCCAGAGGTCAGAGGTCACTGCCCAGAGGGGGTCCTTTGTCCTCCCCTGGGCTCTGTAGGCAGTGCCACACCTGAAACGTTTTCGGGGGGAGAGTGCCAGGGCATGTGGGCCTGCACTGGCTGAAAGGAAAGGAATGCTCTGGGAGTTATGGCAGAAGGGGTGGTGAGTGGCTCTTTGACCTCTGACCTGCTGGAGTCATTCGCCCCAGAACGCTTGGCCTGTAGCCCAGCTGGGGCCAGGGCTCTGTGCCGCCTTCTCCCTAACGCTGCTTCTCCTTCCTGACTTTCTCTAAATTTCTCCTCTCGGCCTCTGTCTCCCTCCCCTTCTGGATTCCTCTCTCTCTCTCTCCCCTTTCACCCCCGACCCTGCCCTCTCCCGTGGG
Seq C2 exon
TCTGCCAGCCTTCTACACAGCGGCGCCCCTGACGTCTGCCGGCATCCTGCCTGTCATGCAATCGCTGTGCCCGGACGGCCAGCGAGACGAGTTCGGCTTCCTGCAGTACGCCAACTCCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107331-ABCA2:NM_001606:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGTCCTGGCCTTCGAGAT
R:
GTGGAGTTGGCGTACTGCAG
Band lengths:
214-1296
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)