GgaINT0064434 @ galGal4
Intron Retention
Gene
ENSGALG00000015433 | ABCA1
Description
ATP-binding cassette sub-family A member 1 [Source:RefSeq peptide;Acc:NP_989476]
Coordinates
chrZ:54576069-54576533:-
Coord C1 exon
chrZ:54576328-54576533
Coord A exon
chrZ:54576246-54576327
Coord C2 exon
chrZ:54576069-54576245
Length
82 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
ACATCTTTTTCCTTTGGCAGGTA
3' ss Score
10.4
Exon sequences
Seq C1 exon
TGTGTCAACTTGGACAAACTGGAGCCTGTGGCCACAGAAGTCCGTCTTATAAATAAGTCCTTGGAGCTTCTGGATGAAAGGAGATTCTGGGCTGGTGTTGTCTTCACTGAAATAGCTCCTAACAGCACAGAGCTCCCTCAGCATGTGAAATACAAAATACGCATGGACATTGACAATGTGGAAAGGACCAACAAGATTAAGGATGG
Seq A exon
GTGAGGCATAACGGGCTGCCTTGTGAAGAATTTCTTACAGGGTTTGAGGATTTCTAACTGAAACATCTTTTTCCTTTGGCAG
Seq C2 exon
GTACTGGGATCCTGGTCCCCGTGCTGACCCCTTTGAGGACATGCGCTATGTGTGGGGAGGTTTTACCTACTTGCAGGATGTGGTAGAACAGGCCATCATCAGGGTGCAAACAGGCACAGAAAAGAAGACAGGAGTTTATGTGCAGCAGATGCCTTATCCGTGTTATGTGGATGACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015433:ENSGALT00000024891:13
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:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(15.3=63.3)
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:
GGAGATTCTGGGCTGGTGTTG
R:
CATGTCCTCAAAGGGGTCAGC
Band lengths:
170-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]