GgaINT0144866 @ galGal3
Intron Retention
Gene
ENSGALG00000002453 | ABCA7
Description
NA
Coordinates
chr28:2380051-2380461:-
Coord C1 exon
chr28:2380292-2380461
Coord A exon
chr28:2380229-2380291
Coord C2 exon
chr28:2380051-2380228
Length
63 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
TAACTCCCCTTCTGCTGCAGGAT
3' ss Score
9.38
Exon sequences
Seq C1 exon
GTGTGGTTCAACAACAAGGGCTGGCACGCCATGGTCGCCTTCCTCAACGTGGCCAGCAATGGGCTGCTGAGGGCACAGCTGCCTGCAGGCTCTGACCCCGCACTCTATGGCATCACGGCCATCAACCACCCCCTGAACCTCACCAAGGAGCAGCTCTCGGAGGCTGCACT
Seq A exon
GTGAGTGCTGGGTTTGGGCTCCCGTAGGCTCCCCACTGCCCGCTAACTCCCCTTCTGCTGCAG
Seq C2 exon
GATGGCCACATCGGTGGACGTGTTGGTCTCCATCTGCGTGATCTTCGCCATGTCCTTCATCCCGGCCAGCTTTGTGCTCTTCCTCATCGAGGAGCGGGTCAGCAAGGCCAAGCATCTGCAGTTCATCAGTGGGATGAAGCCCGTCACCTACTGGCTGGGCAACTTTGCTTGGGACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002453:ENSGALT00000003869:14
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(17.0=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(17.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTGACCCCGCACTCTATGG
R:
GGGATGAAGGACATGGCGAAG
Band lengths:
144-207
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]