GgaINT0016414 @ galGal4
Intron Retention
Gene
ENSGALG00000001967 | ABCA3
Description
ATP-binding cassette, sub-family A (ABC1), member 3 [Source:HGNC Symbol;Acc:HGNC:33]
Coordinates
chr14:13582991-13583787:-
Coord C1 exon
chr14:13583671-13583787
Coord A exon
chr14:13583112-13583670
Coord C2 exon
chr14:13582991-13583111
Length
559 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TAACTGCTTTTTCTCTCCAGGTG
3' ss Score
11.87
Exon sequences
Seq C1 exon
GAGTACATGCACATGATGGGCCTCAGCAACTGGCTGCACTGGAGCGCCTGGTTCCTCATGTTCTTCCTCTTCCTGCTGGTGTCTGTGTTCTTTGTCACCCTGCTCTTCTGTGTCAAG
Seq A exon
GTGAGTGTGTTTCCTCAGGCCAGAAGCTCTGTGCTGGTGGGGCACGAGGGCAGCAGGGCTCCTTTGTCACAGGTTGGTTTGTACCAGTGACTCAGGCCTCATACATGTGCCTCAGAGCCTGAAGCTGTTGGGTGGACAGAGCCTGAGCACTGCAAAGGGCACCTGGGAGCCCGTTTCAAGTCACTCTCAGCTTCAGGAGGGTGAATTGATAACCGTGCACCCAAAGCTGCCTTTGCCAGCAGCTCCTCCCCCAGGAGGAGCAGACGTGTCCCACTGCTGAGCACTGCATCCTCAGGGGACTCGGGCTCCCCTCGCTGTGCACCCACAGCATGGGAAGCATGAGGTGGCTGTCCAGGTGCAGAGCACGGTGTCCTCATAGACCCTGCATGGGGACAGCCCTTATTTCCTCCCTCTGGACTGTTCTAAGAGGGCCTGAGCGTTCCTACCTGCCTCTACATCTGTCTTTAACCGTGGAGACCATCATGCCTGGGATGCCTTTGTGTGCCTGCAGCCGTGGCTGGCTTTGCCAGCTGCAGAGGTAACTGCTTTTTCTCTCCAG
Seq C2 exon
GTGAGTGAACAAGGAGCTGTGCTCACCAGCAGTGACCCCACGCTGGTGTTCACCTTCCTCGCCATCTTCTCCATCTCCACCATCTCCTTCAACTTCATGGTGAGCACCTTCTTCTCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001967:ENSGALT00000003054:6
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(8.5=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(8.9=100)
Main Inclusion Isoform:
NA
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:
GCACATGATGGGCCTCAGC
R:
CTCTGGAGAAGAAGGTGCTCAC
Band lengths:
230-789
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]