GgaINT0016431 @ galGal4
Intron Retention
Gene
ENSGALG00000001967 | ABCA3
Description
ATP-binding cassette, sub-family A (ABC1), member 3 [Source:HGNC Symbol;Acc:HGNC:33]
Coordinates
chr14:13571612-13572117:-
Coord C1 exon
chr14:13571945-13572117
Coord A exon
chr14:13571747-13571944
Coord C2 exon
chr14:13571612-13571746
Length
198 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
GTTTTCCACCCTGTGTTTAGGTG
3' ss Score
9.39
Exon sequences
Seq C1 exon
ATATCAGCTATCAGGTGAACTACTTTTCCTGGGAGTCGCCTGGGATTGGGCAATACCTGACCTCCTTGACCGTCCAGGGTTTCTCCTTCCTCTTCCTCCTCTTCCTCATTGAGACGAACCTTCTCTGGAGACTGAAAACTTTGGTCTGTGGCATCTGCAGGCGGCGGAAATGG
Seq A exon
GTGAGCTGAAGCTTGTGGGAGGTGGCAACGTGGGGCAGGTCCTGAGGGGTGTGTGGGAGGGCAGAGAGATGGGGTCTATCCCCATCGAGGGGTGACTGATGGAGCAGGTGGCCCCTGCCTGAGCTGGGAGTGCCTGCCTGGAAGAAGCTGCTCGTGCCGCAGCAGCAAAGTGACAGTGGTTTTCCACCCTGTGTTTAG
Seq C2 exon
GTGGCACTGCTGAACAGCGTGTCTGTGCTGCCTGAGGACCGGGACGTGGCAGATGAGAGGAAGAAGGTTTTGGAGTCGCCACCGGAGCTGCTGTCATCACTGAGCAGCCCTCTGGTCATCAAGGAGCTCACTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001967:ENSGALT00000003054:23
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=PD(8.7=60.3)
A:
NA
C2:
NO
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:
TACCTGACCTCCTTGACCGTC
R:
CTCCTTGATGACCAGAGGGCT
Band lengths:
246-444
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]