GgaINT0127833 @ galGal4
Intron Retention
Gene
ENSGALG00000004333 | ABCA5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:HGNC Symbol;Acc:HGNC:35]
Coordinates
chr18:8251717-8252205:-
Coord C1 exon
chr18:8252044-8252205
Coord A exon
chr18:8251815-8252043
Coord C2 exon
chr18:8251717-8251814
Length
229 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGAT
5' ss Score
6.04
3' ss Seq
ACTGCCTTGCTGTTCTGCAGCCA
3' ss Score
8.19
Exon sequences
Seq C1 exon
CAGGCCTCATCACAGAGGAGTATTTAAGTGAAGAGGACCTGGAAAAGGCCAGTGCTTCCAAATCCTCCAACTTCGTGGGCGTTGTGTTCAAGGATGCCATGTCCTACCAGCTGAGGTTTCCTGACATGGTGGCTATGGCTTCTGTCTATACAGAGTCGAGAG
Seq A exon
GTAGATGTTGCATGCCCTTATGTGGGGGATAAACTGGAAAATGAGACCTTTTGTCTTTCTTTGGTCTGATGTTCAGTGTGTATGCGTATAAATGTGTGTGTGTGTGTGTATTTCTTTCTTTTTGGAAGATGTTTTCACCTCTTACAAGGCCTGGCCTCATCTGTATGTTGATGCTATGGCTGCTCTGTGCTCACCTTCTTGCTTTTCACACTGCCTTGCTGTTCTGCAG
Seq C2 exon
CCAGCTGCTCCAGCATGCGGATGAGTTGTGAGTCCATCACATACTGGACCTCAGGATTTGCGGCTCTGCAAGCATGCATTGATGCAGCCATCATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004333:ENSGALT00000006907:3
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(13.8=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(8.2=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:
TCATCACAGAGGAGTATTTAAGTGA
R:
CTGTATGATGGCTGCATCAATG
Band lengths:
254-483
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]