GgaINT0064448 @ galGal4
Intron Retention
Gene
ENSGALG00000015433 | ABCA1
Description
ATP-binding cassette sub-family A member 1 [Source:RefSeq peptide;Acc:NP_989476]
Coordinates
chrZ:54563983-54564584:-
Coord C1 exon
chrZ:54564471-54564584
Coord A exon
chrZ:54564132-54564470
Coord C2 exon
chrZ:54563983-54564131
Length
339 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTG
5' ss Score
8.35
3' ss Seq
TTCTTGTTTCTTGCTAACAGAAT
3' ss Score
8.52
Exon sequences
Seq C1 exon
ATGGGACATTGCCTGCCAGAAGGAACAGGCGTGCATTTGGAGACAGACAGAGCTGCCTTCGTCCATTTACAGAAGATGATGCATTTGACCCTAATGATTCAGACATTGATCCAG
Seq A exon
GTATTGCTGGTTCTCAAGCCTATTTTCTTCTTGTGAACACTACATAGTGCAGATTACAAGGCTGAGAGTGCCAAAGGAATAGTGGTTTATTTGCCTTCAGAAATCATGGGCAATGCAGTATCCAGCAGTGCCTTGCTCCATCCTCTTTTTAAGTCTCAGAGAGATAAAGATGCAAATGCTGTTCTGTGAATTTCTGTTGCTTTATCCGCTTGTTGCTCTCTTTTTTGATAAGTGAGTGTAGTTGGTCCAGCCTTCACCTTGTTAATTCAGCACAGAAGTGCTGAGGGAATATCTTTGTGGGCTTGCGATTAAGAGTTCTTTCTTGTTTCTTGCTAACAG
Seq C2 exon
AATCCAGAGAGACTGATCTTCTCAGTGGCATGGATGGGAAAGGCTCCTACCAGATGAAGGGCTGGAAGCTCTCCCAGCAACAGTTCATGGCTCTGTTGTGGAAGAGGCTGCTTATTGCCAAGAGAAGCCGGAAGGGCTTCTTTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015433:ENSGALT00000024891:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.410 A=NA C2=0.160
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TGGGACATTGCCTGCCAGAAG
R:
CTGAGCAAAGAAGCCCTTCCG
Band lengths:
262-601
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]