GgaINT1005078 @ galGal4
Intron Retention
Gene
ENSGALG00000015433 | ABCA1
Description
ATP-binding cassette sub-family A member 1 [Source:RefSeq peptide;Acc:NP_989476]
Coordinates
chrZ:54574934-54575605:-
Coord C1 exon
chrZ:54575383-54575605
Coord A exon
chrZ:54575156-54575382
Coord C2 exon
chrZ:54574934-54575155
Length
227 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CACCTGTTGTTCTCTTCCAGATG
3' ss Score
11.93
Exon sequences
Seq C1 exon
ATTTCTGCGTGTCATGAGCCGTTCCATGCCTCTCTTCATGACTCTAGCCTGGATCTACTCAGTGGCTGTGATAATTAAGGGCATTGTGTATGAGAAGGAAGCCCGGCTAAAGGAAACAATGAGGATTATGGGCCTTGACAATGGCATCCTTTGGCTAAGCTGGTTCATTAGCAGCCTCATCCCTCTCCTCATGAGTGCAGGTCTGCTGGTGCTGATCCTCAAG
Seq A exon
GTGAGCTTACTAGTTTGGTTTGTGACAGCAGAATCCAGAACAGTGGAGTGCAGTGGCCTCTGTTGGCACAGTGGGGAGGAGGTGGTGGGTGCTGGCTGGTCAGCAACTGTTGTGCAGATTGCAGCAAGTCCAGAATCCCCTTAGCAAGCAGTGTTGTGGGCCTCCTTGTACTAGAGCCATGTCAGAGAGCCCTTTCAATACGTGATGCACCTGTTGTTCTCTTCCAG
Seq C2 exon
ATGGGGAATCTGCTGCCTTACAGTGACCCTAGTGTGGTGTTCGTTTTCCTCTCAATCTTTGGCATTGTGACCATCCTGCAGTGCTTTCTCATCAGCACCGTGTTCTCCAGGGCCAACCTGGCAGCTGCCTGTGGAGGCATTGTGTATTTCACTCTATACCTACCCTACGTGCTGTGTGTTGCCTGGCAGGACTATGTCAGCTTCTCGCTCAAGATCTTTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015433:ENSGALT00000024891:15
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(29.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(29.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGGCCTTGACAATGGCATC
R:
GACATAGTCCTGCCAGGCAAC
Band lengths:
294-521
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]