GgaINT0064438 @ galGal4
Intron Retention
Gene
ENSGALG00000015433 | ABCA1
Description
ATP-binding cassette sub-family A member 1 [Source:RefSeq peptide;Acc:NP_989476]
Coordinates
chrZ:54573458-54574325:-
Coord C1 exon
chrZ:54574121-54574325
Coord A exon
chrZ:54573572-54574120
Coord C2 exon
chrZ:54573458-54573571
Length
549 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TAATGCTTTTTTCTCTTTAGGCC
3' ss Score
10.17
Exon sequences
Seq C1 exon
AGCCTGTTATCTCCAGTAGCCTTTGGCTTTGGTTGCGAGTACTTTGCACTGTTTGAAGAGCAGGGAGTTGGTGTTCAGTGGGACAACTTCTTTGAGAGCCCACTAGAAGAAGATGGCTTTAGCATCACCACATCTGCTGTAATGATGTTGTTTGACACGTTCCTCTATGGGGTCATGACCTGGTACATTGAGTCTGTCTTCCCAG
Seq A exon
GTGAGATTTGCTTCAGTGGGAAGGGTCATAACTTCATACTTTCATGTCCTACTCCTTTGACAAGATGCAAAACAAATGCATTTTTAAGCAGAGCTACAGAAGGGTCATGGAGAAGAATCCTATACCACTAGCACAGAACTGTCGCAGCTTCTAGCAGTGACTTTTTCCCATTTCCCAGCACAGAGGTTGTGCCCTATTGTGGTGATGGCTAAACTAGCCCCAGGAAGTTCGGTGCATTTCAGCTTTTCTTTTCTATAAACTGCTAATACTACAGTAATACTACAGACAGTGCTGGGGGGTGGGGGTGGTAGGCGAGCAGTGATGATATTAGCACCACACATGCTAATTCTAGCATAGAACCTCTAACCCTAAAATGAAAATTCTGGAAAAGAGGTTACTTTTATTCTAAAGACTGGCAGTAAAGATCACCTTAGCCCTGCCTAACCTAGAGGCTTGTGGAGGATGGAATACTTCCCTTCTTGCTGTGAAAGCTAAGATGAAAAAATGATCAGCTGCAGCTGAGCTCATGTAATGCTTTTTTCTCTTTAG
Seq C2 exon
GCCAGTATGGGATTCCCAGACCCTGGTACTTTCCTTTCACAAAATCCTATTGGTTTGGTGAAGAATCTCAGGACAGGCAGCATCTTCATCCTGACCAGAAGGGGCCCTCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015433:ENSGALT00000024891:17
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=0.308
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PD(24.5=88.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCTGTTATCTCCAGTAGCCT
R:
CTTCTGAGGGCCCCTTCTGG
Band lengths:
319-868
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]