GgaINT0064467 @ galGal4
Intron Retention
Gene
ENSGALG00000015433 | ABCA1
Description
ATP-binding cassette sub-family A member 1 [Source:RefSeq peptide;Acc:NP_989476]
Coordinates
chrZ:54551078-54551929:-
Coord C1 exon
chrZ:54551795-54551929
Coord A exon
chrZ:54551180-54551794
Coord C2 exon
chrZ:54551078-54551179
Length
615 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TTTTTGCATGTATTTTGCAGGAT
3' ss Score
9.21
Exon sequences
Seq C1 exon
GTTGGTGAATGGGCAATTCGTAAACTGGGCCTTGTGAAATATGGAGAAAAATATGCAGGCAACTACAGCGGAGGGAACAGGCGCAAGCTCTCCACAGCAATAGCCCTCATTGGAGGGCCACCTGTGGTATTCCTG
Seq A exon
GTGAGTTTGCAACCTTAAATCATTAACATTTTCCTCTGAAAACAGAAAAATTAGGCTCAGATGAAGACTGGTTATTTTGTGACCAACAAAACCTAAAAATGTCACCAGTCACCTAAATATAAGCAGAGAACACAGGGAATCTTTAGTTGGGCCTGTTTGAGCCTATTTGAAACTAGGCTCAAATTATAATGTGTCTTACAGTTTCTGTTCATGGAAAATCAGTGGAGAAGCGGAGATCTCAAACATGATGCCAAAGTAGCAACAGTTAAAGCATCTTCACCACTGCTGCAAATATTTTTATGCATGCAGAACATTATGGCCCGCCAGCATTTTCTAGCTCAATTTAAACTTGAACTAAGTTTAACTGGTTTTAGAACTGGCTTTTTCAATGTGTTATAAATACAGAATAAACAGTGCCTCTCAGTTCTTCAAATTTTAAATTAGCAAACATGCTTTTGAGTATAAGCTGTTTTCCCATTTAAAAAAAAAATGTATCAAGCTCACTTATTTTCATCTATTCCAATATGCAAAATCAGAATGGCCAGGTCATTTCAGAGATGAGATATTTCTTGGTAGCATGGAACAGCATATCCTATTTTTGCATGTATTTTGCAG
Seq C2 exon
GATGAGCCAACAACAGGGATGGACCCCAAAGCACGCCGTTTCTTGTGGAACTGTGCTCTGAGTGTTATCAAAGAGGGGAGATCAGTCGTGCTTACATCTCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015433:ENSGALT00000024891:46
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=0.029
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(30.3=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(2.8=11.8)
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:
GTTGGTGAATGGGCAATTCGT
R:
GTAAGCACGACTGATCTCCCC
Band lengths:
230-845
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]