GgaINT0016429 @ galGal4
Intron Retention
Gene
ENSGALG00000001967 | ABCA3
Description
ATP-binding cassette, sub-family A (ABC1), member 3 [Source:HGNC Symbol;Acc:HGNC:33]
Coordinates
chr14:13572722-13573320:-
Coord C1 exon
chr14:13573101-13573320
Coord A exon
chr14:13572881-13573100
Coord C2 exon
chr14:13572722-13572880
Length
220 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
ATCTGTTGATCCTCTTTCAGAAT
3' ss Score
8.91
Exon sequences
Seq C1 exon
GTGATATTCCAAGCCTTTGATGTGCAAGCCTTCACCCAAGACAGCCACCTTGTCGATGTGATGTTGATCTTCCTCCTTTATGGCTGGGCCATCATCCCCCTCATGTACCTCCTCAGCTTCTTCTTTTCAGTGGCGGCCACGGCTTACACCCGTCTCACCATCTTCAACATCCTCTCTGGCACAGCCACCTTCCTTGCTGTCACCATCATGAGCATCCCAG
Seq A exon
GTGGGTCAGTGCCCTCCCTACCCAGCCCTGCACCCTGCCACCACCAAGAAGATGCAGCCCCTGAGGGGACTCTGTCATACTTAGGTCCTGAGGCTGTCCCATGCACCAGGAAAACCTAAACAGCCCCTTCTCACCAGTTAAGCATGCCAAAGCGTGTTGGTTCTCTTTCTGAGATATATCAGGGTCTTTCTCTAAATCCGATCTGTTGATCCTCTTTCAG
Seq C2 exon
AATTGGGCTTGGTGGACCTCTCCAGAACTCTGGATAAAATCTTTCTCACCTTACCCAATTACTGCTTGGGTCAGTGCATCAGTGACTTCTACCAGAACTACGAGTTCATTCAGTTCTGCACCTCTTCTGTTGAAGCCATCTTCATATGCAAGGCATTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001967:ENSGALT00000003054:21
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(18.2=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(13.2=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:
CAAGCCTTTGATGTGCAAGCC
R:
AGTCACTGATGCACTGACCCA
Band lengths:
298-518
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]