GgaINT0064442 @ galGal4
Intron Retention
Gene
ENSGALG00000015433 | ABCA1
Description
ATP-binding cassette sub-family A member 1 [Source:RefSeq peptide;Acc:NP_989476]
Coordinates
chrZ:54568226-54569854:-
Coord C1 exon
chrZ:54569715-54569854
Coord A exon
chrZ:54568364-54569714
Coord C2 exon
chrZ:54568226-54568363
Length
1351 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
3' ss Seq
CTTTCTTGTTGGCCTTTCAGGTG
3' ss Score
11.42
Exon sequences
Seq C1 exon
GCTGACTGTGGAAGAGCACATCTGGTTCTATGCTCGGCTCAAAGGGTTGCCGGAAAAGAAGGTAAAAGAGGAAATGGAGCAGATGGCAATGGACGTTGGTTTGCCTCACAAACTGAAAGCCAGGACAAGCAAACTCTCTG
Seq A exon
GTAGGTTCATCAGCTTTTACATTTGTCAGCAGCTCCCTCAGCTTCAAAAAGGCTCTATCAGGGAGGGCCTGACTGAGGCTGCATCACAGATCTCGATTGGATCCTCCAATCAGATACACAGGCTACCGCGCATCTAGGCAGTTGAAAAAATTAGTTATTTATTAAGTGCCTAATCATCATATATGCTAGTAAACTTAACAATCTTACAGTATTTATGCTATCTAATAATGTAAAAAAACAGTCACTTTTTTCTCAGTATTCTGTACTTGTTTCTGTCTTGACAGGGGGCATCACCTCACGGCCATGGAATCTGTATACCTGTAATACAGCTACCTGTGATATATGTTCTCCAAATACTAACTAGAATATTTGGGTTTTACAGGTTTAGGTGAAGGTGGCTCAGACCCTAACCTTCAAGTAATTTGACCCCTATTTCGTAGAATCTTAGAATGGTTTGGTTTGGAAGGGACTAAGATCACCTAGTTCCAACCCCCCTGCTGTAGGCAGGGACGCCTCCCAGTAGACCAGGTTGCTCGGAGCCCCATCCAGCCTGGCCTTGAATGCTTCCAGGGTGGGGGCATTCACAGCCTCTCTGGGCAGCCTGTTCCAGTGTCCCACCACCCTCACAGTAAAGAATCTCTTCCTAATATCTAGTCTAAATCTACCCTCTTCCTGTTTAAAGCAATTTCCCCTCATTCTGTTGGCTACCTGCCATTACAAAAACTTCCATCCAAACACTGTGAACACTGTGCACTTCTTACGTTGGCTTTTTTTTCAGTTGGTATCCTTCCCCTTTGTTCAGGAATACCAGGATTCCTGTATCAGCCTGTGCCAGGTATCTGAGGACTAGGACTGTTTTGTCTCTGACTCAACTATCAACACATTTGGCTTTAGTAAGGGAGAGCAGATTGTCACAGGTTGGCTTCACACTGAAGAGTATAATATGAAGTATTATGTCACTGCTGCCTCTAACACACTCCCACTGGAGGGGAGTCTCTTGGGCACCTGTTCCTTTGGCTCAAGCTTTTAGGGACCTGCTCCAGATCCTCAAGATATGGTTAGGCATCTGAGCAAGAAATATGGTACTGCTGATGTTAAGATACATATGATTCATTATTATAGAGGGGTTGTGGTATGGAGGAATTGTGCTCTGCTGGGGAAAACTATCCTGATGAATTATTCTTTGTCCTGAAGGTGATGAGACCCGGAAGGCATAAAACAGTATCAGCACTCAGTTTTCTCAGTGCTCAATTTTGCTTTTTCTTGGAGAGCTCAATTTCCACTTTGTTGCTCTCATTTCTGTTCTGTTCTTTGCATCAGCCTGACCCCCTCTTTCTTGTTGGCCTTTCAG
Seq C2 exon
GTGGCATGCAGAGGAAGCTCTCAGTTGCCTTAGCCTTTGTTGGTGGCTCCAAAGTTGTCATTCTGGATGAGCCCACAGCTGGAGTGGATCCTTATTCTCGGAGAGGGATATGGGAACTGCTTCTGAAGTACAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015433:ENSGALT00000024891:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(32.4=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(17.9=55.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGACTGTGGAAGAGCACAT
R:
TGTACTTCAGAAGCAGTTCCCA
Band lengths:
272-1623
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]