GgaINT0016417 @ galGal4
Intron Retention
Gene
ENSGALG00000001967 | ABCA3
Description
ATP-binding cassette, sub-family A (ABC1), member 3 [Source:HGNC Symbol;Acc:HGNC:33]
Coordinates
chr14:13580057-13581592:-
Coord C1 exon
chr14:13581411-13581592
Coord A exon
chr14:13580204-13581410
Coord C2 exon
chr14:13580057-13580203
Length
1207 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGC
5' ss Score
9.44
3' ss Seq
TTTCTGTCTTCTCCTGTCAGCCC
3' ss Score
8.86
Exon sequences
Seq C1 exon
GGACTGGCATTCAATGGAGGGACCTCATGAAACCTGTCAGTGTGGACGACAACTTCACCTTGGCACAAGTCCTGGGGATGCTGCTCCTGGACTCGGTGCTCTATGGCCTGGTGGCCTGGTACGTGGAGGCTGTCTTCCCAGGAGAGTACGGCGTGCCGCAGCCCTGGTACTTCTTCCTGACG
Seq A exon
GTGAGCACTGCTTGCACACCCCTCCCAGCAGGGCTTATGGCATGCTTCGGTGATGTTCCCTGCTTTCTGCCTATGCAGCAGGTCAGACTAAATGGAAACTATTTCCACTATTGACTACTATTGACACTATTGGCTTCCAAAATTGGGGTGCCTGCCATGCGTCTTCATTAGAGGATGACGTAGGCAAGTTTATGACTATGAAGTACATCTTGCAGGTCTTCTTGGCTTTAAATCTTTGTCCCAACACTTATTCTCATGCATGGTATTGCTAACAGTGTCTCCATGCCCCCAACATGAGAGAAAAGCATTAGCTTCTTGTCGTGGCATCAGAGAGAAGCCTGGGGTGGGAGTCAGCAGGTGGTCACTTGGGACTGCCCTGAGCAGTGAGGTCTGGCTGGGTCTGCGCCCTGCCCTGAGCCATCACCAGCAGCCACAGGGGTGGGATACAGCTGTAGGGCAAAGCTGGTTGTCACCCATCAGCTGTGCCGCTGTCACTGCCAGCCGGGTGCCATCACCAGCTCTGATGTGTTGTCCTCAGCCTGTCACTGTTGTGTGACAGAATCCCCCGAGCCTCAGTAACAGCAACACTCCTGATCGTATAAGCATTGGGAGGCTTTTCCTCCTTCCCTCTGAATTCCTTACTGCATCATGGTTTTGACTCCCTTTTGTAGCTAGACCTGTGCAGAGCTCTTGATGAAGCAGGAACGCAGCTGTCTGCCAGAAGCCCCCATGGGCTGGAAGGCAGTCATGCTGTGATGCAGCTCAGTGCTGCCCTGTGCTGGGCACAAATGTGTGCTGGCCCTCAGGTGTTCGGCTTTCATTCTTAGAAAGCCAGGTCCAGAAGGGTGAAACTGCAGCACTGGACTTCAGCCCATTTCTGTTACAGCACGCAGGGCTTTTGGGAGTGGTTATTTGTTGCATTTGCCCCTCAGGCTCTTCTGGGCAGGATGCTTATCCCTCAGCAGTTTTATTTCTTGCTGCCACATTGACCTTTTCTGTGGAAATGAAGAGGGAAAAGCCACAGGGAGAGGCAGCCGGGGGATGGCAGCAGGGCAGGAGGAGCAGTTCTGTCCTCTGGTTGCTTTGCCTGCACTGCCCAACATCTGATGGGCCAGGAAGAGCAGCCTTGCAGGGAAGCACATGTGTGGAAGAGCAGTGGGGAGTGGGTCGGTGTGGGCCTGAGGGTCTTTCTGTCTTCTCCTGTCAG
Seq C2 exon
CCCTCGTACTGGTGTGGGCAACCCAGGACTGTCATTGGGAAAGAGAAGGAGGAGGAGGAAGACCCCGAGAAAGCCCTGAAGAGCCAATACATCGAGGAGGAGCCTGCTGACCTCGTGTCGGGGATCAAAATCAAGCACCTTTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001967:ENSGALT00000003054:9
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=0.306
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PD(8.9=65.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GGACTGGCATTCAATGGAGGG
R:
GGAAAGGTGCTTGATTTTGATCCC
Band lengths:
326-1533
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]