GgaINT0144867 @ galGal3
Intron Retention
Gene
ENSGALG00000002453 | ABCA7
Description
NA
Coordinates
chr28:2379838-2380228:-
Coord C1 exon
chr28:2380051-2380228
Coord A exon
chr28:2379954-2380050
Coord C2 exon
chr28:2379838-2379953
Length
97 bp
Sequences
Splice sites
5' ss Seq
ATGGTGCGG
5' ss Score
5.75
3' ss Seq
CCGGCTTCTCATGCCCACAGTGC
3' ss Score
8.79
Exon sequences
Seq C1 exon
GATGGCCACATCGGTGGACGTGTTGGTCTCCATCTGCGTGATCTTCGCCATGTCCTTCATCCCGGCCAGCTTTGTGCTCTTCCTCATCGAGGAGCGGGTCAGCAAGGCCAAGCATCTGCAGTTCATCAGTGGGATGAAGCCCGTCACCTACTGGCTGGGCAACTTTGCTTGGGACATG
Seq A exon
GTGCGGGATGGAGACGGGGTCAGGATGGGGCACATCTGTGGCTCCTGAGGGCCAGGAACTCTTTGTCACCCCCCTGCCCGGCTTCTCATGCCCACAG
Seq C2 exon
TGCAACTACCTGGTCCCTGCACTGCTGGTTGTCCTCATCTTCCTCTGCTTCCAGCAGAAGTCCTACGTGTCCTCAGCCAACCTGCCTGCCCTGGTGCTGCTGCTGCTGCTCTACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002453:ENSGALT00000003869:15
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(17.9=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(11.6=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:
CTTCGCCATGTCCTTCATCCC
R:
GATGAGGACAACCAGCAGTGC
Band lengths:
175-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]