GgaINT0125095 @ galGal4
Intron Retention
Gene
ENSGALG00000001226 | ABCA2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:HGNC Symbol;Acc:HGNC:32]
Coordinates
chr17:422549-423072:-
Coord C1 exon
chr17:422938-423072
Coord A exon
chr17:422653-422937
Coord C2 exon
chr17:422549-422652
Length
285 bp
Sequences
Splice sites
5' ss Seq
CTGGTGCGC
5' ss Score
6.68
3' ss Seq
GGGTGCCATGTGTCCCACAGGAT
3' ss Score
8.41
Exon sequences
Seq C1 exon
GTGGTGAAGTGGGCGCTGAAGAAGCTTGAACTGACCAAGTATGCTGACAAGCCTGCCAGCACCTACAGCGGAGGCAACAAGAGGAAGCTGTCCACAGCCATCGCTCTGATTGGATACCCAGCCTTCATCTTCCTG
Seq A exon
GTGCGCCCTGGGCCCCCTGGCACTCTGTGACATGGGGTCTTTATCCCACTCCCATAAGACCCATGCTTCCACTCAGTTCCTTACCCCTGGGTGTGGACCCAGGCTAGCGTGCAGCTGTCCCGGGTAAAACTGTGCCCTGGGAAGGGAATTCCTGCCCCATGGCCTTGCCATGAGCATTCCAAGCCAGGGGGGGCAGGGAGGCAGAGCTGTGTCCATGCATTGGGAAGGGAGTTGTGGGGTTCCACCTGAGAGCCAGCTTGTCTGAGGGTGCCATGTGTCCCACAG
Seq C2 exon
GATGAGCCTACTACAGGGATGGACCCCAAGGCACGGCGCTTCCTCTGGAACCTCATCCTGGATGTCATCAAAACAGGCCGCTCTGTAGTGCTCACATCCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001226:ENSGALT00000040507:43
Average complexity
IR
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(30.3=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(2.8=11.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGAAGTGGGCGCTGAAGAAG
R:
CTGTGGGATGTGAGCACTACA
Band lengths:
236-521
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]