GgaINT1005080 @ galGal4
Intron Retention
Gene
ENSGALG00000015433 | ABCA1
Description
ATP-binding cassette sub-family A member 1 [Source:RefSeq peptide;Acc:NP_989476]
Coordinates
chrZ:54554557-54555380:-
Coord C1 exon
chrZ:54555257-54555380
Coord A exon
chrZ:54554687-54555256
Coord C2 exon
chrZ:54554557-54554686
Length
570 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
TCGTCTTCTCATCTTGGCAGGTG
3' ss Score
10.03
Exon sequences
Seq C1 exon
AAGCTGAACAACATCAATGACATCTTGAAGTCTGTCTTTCTTATCTTCCCTCACTTCTGCCTGGGGCGGGGTCTTATTGACATGGTGAAAAATCAGGCCATGGCTGATGCTCTGGAGAGGTTTG
Seq A exon
GTAAGTGCAATTGTGCGGTCCTGCTCTGGATTAACACCCTTGTTCTTCTGACTTTTCAGGAGTTCAGAGTACACAGTTTGCAGCACAGAGCTTATCAGAGTTGGCAGGTATCCTCAGCTGCCCTCTTCAGGCTGTTTCAAACACCAAAGAAATCAGGCAAATAGATCCCAGAACTCTGAGTTATTAGAATCCAGATGCATGGGGGGAAGATCATTAAGCTGAGTGGAAGGGGTGGCTAAGATTCTGTAGAGCCAGTTTATTTTTTTTTTTCTGGAATGCAGATGAGAGGTGTGAGTCAGTTGCATTGTGCTTCTTGAGATGTGGGCCAGCTCTTCTTTGGTAGACCAAATTCTTAGTGTCCAGTCAATTTCTCTCAAGAGAACATGCTGAGACCCAACTTTGCTGCAGCAAGAGATGTGTATGCAGTCACAGCTTGTATAGCTTGTCCCCAGTCTCCTCTAACTGATTGTTCTCAGTTCTCACCTGAATTGGTGAGATCTACAGGAAGAAATGATAGCAATCTCCCGTTGCCCTGGAAAGGTGACTGTGCTCGTCTTCTCATCTTGGCAG
Seq C2 exon
GTGAGAATCGTTTTGTGTCCCCTCTGTCATGGGACCTGGTGGGAAGGAACCTGTTTGCCATGGCAGTGGAGGGTGTGGTCTTCTTCCTCATTACTGTGCTCATCCAGTACAGATTCTTCATCAAACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015433:ENSGALT00000024891:40
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:
PF126982=ABC2_membrane_3=FE(11.2=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(9.0=75.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCTGAACAACATCAATGACATCT
R:
CTGGGTTTGATGAAGAATCTGTACTG
Band lengths:
254-824
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]