GgaINT1005082 @ galGal4
Intron Retention
Gene
ENSGALG00000015433 | ABCA1
Description
ATP-binding cassette sub-family A member 1 [Source:RefSeq peptide;Acc:NP_989476]
Coordinates
chrZ:54554114-54554431:-
Coord C1 exon
chrZ:54554311-54554431
Coord A exon
chrZ:54554177-54554310
Coord C2 exon
chrZ:54554114-54554176
Length
134 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
TTTTTTTTTTCTGGTTTCAGATT
3' ss Score
11.14
Exon sequences
Seq C1 exon
GCCTGTCTATGCCAAGTTACCTCCTGTGAATGATGAAGATGAAGATGTAAACAGAGAAAGGCAGAGAATAATAAGCGGAGGAGGACAGAGTGACATACTAGAAATCAGGGAGCTGACCAAG
Seq A exon
GTAACAAAGTTTTGCATTTCTAAGACCCATTTATGCAAAACTGTGCAGTTCACCAGGAGTTTCATTAAGAAAAGGGTCTAGTTATAGTTCTCATTTACATTGTTGTTTTTTTTTTTTTTTTTTTCTGGTTTCAG
Seq C2 exon
ATTTATAGAATGAAACGAAAGCCAGCAGTTGACAGGATATGTGTTGGAATCCCTCCTGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015433:ENSGALT00000024891:42
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.146 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(7.6=52.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTGTCTATGCCAAGTTACCT
R:
GGAGGGATTCCAACACATATCCTG
Band lengths:
177-311
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]