GgaINT0125073 @ galGal4
Intron Retention
Gene
ENSGALG00000001226 | ABCA2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:HGNC Symbol;Acc:HGNC:32]
Coordinates
chr17:433840-434507:-
Coord C1 exon
chr17:434327-434507
Coord A exon
chr17:434053-434326
Coord C2 exon
chr17:433840-434052
Length
274 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
TCCTTTCTCCATCCGTCCAGGTC
3' ss Score
9.5
Exon sequences
Seq C1 exon
AGGAGACACGGGGCATCGAGGAGGAGCCGACCCACCTCCCCTTGGTTGTCTGCATTGACAAGCTCACCAAGGTCTACAAAACTGACAAGAAGCTGGCACTGAACAAGCTGAGCCTCAACCTCTATGAGAACCAGGTGGTGTCCTTCCTGGGGCACAACGGTGCAGGCAAAACCACCACCAT
Seq A exon
GTGAGTTCCAGCCATGGGCTGTGTCCTGGTCAGTGATGAGTTGGGAAGGTGCCACATGGCCATCCTCACTGGGCTCCATGGCTGATGCTGTGCCCAGAGGGAAGCAGTGTGGGTATGAGAGTGGCACAGAAGGGGTTCAGGTGGCCAATGCAAAGCCCTGCATTGATACTGCTCTGCCAGGGCCTGGCAGATACTCTGGGAAGTGGTGATTGAGATTGGAGACAGAGGAAGGCACACAAGGTCCCTCACTGTGTTCCTTTCTCCATCCGTCCAG
Seq C2 exon
GTCCATCCTGACTGGCTTATTCCCACCAACCTCGGGCTCCGCTACCATCTATGGTCACGATATTCGGACAGAGATGGATGAGATCCGGAAAAACTTGGGCATGTGTCCCCAGCACAACGTGCTCTTTGACAGACTGACGGTGGAAGAGCACCTCTGGTTCTACTCACAGCTCAAGAGCATGGCAGAGGAGGAGATCCGCAAGGAGATGGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001226:ENSGALT00000040507:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.066 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(18.6=44.3)
A:
NA
C2:
PF0000522=ABC_tran=FE(49.0=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:
TGAACAAGCTGAGCCTCAACC
R:
TGTCCATCTCCTTGCGGATCT
Band lengths:
294-568
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]