GgaINT0064443 @ galGal4
Intron Retention
Gene
ENSGALG00000015433 | ABCA1
Description
ATP-binding cassette sub-family A member 1 [Source:RefSeq peptide;Acc:NP_989476]
Coordinates
chrZ:54567459-54568363:-
Coord C1 exon
chrZ:54568226-54568363
Coord A exon
chrZ:54567680-54568225
Coord C2 exon
chrZ:54567459-54567679
Length
546 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
CTTCCTTTGCTTTCTTCCAGGCC
3' ss Score
12.28
Exon sequences
Seq C1 exon
GTGGCATGCAGAGGAAGCTCTCAGTTGCCTTAGCCTTTGTTGGTGGCTCCAAAGTTGTCATTCTGGATGAGCCCACAGCTGGAGTGGATCCTTATTCTCGGAGAGGGATATGGGAACTGCTTCTGAAGTACAGACAAG
Seq A exon
GTATGTGGTCTTTTTTTGAACTCCTAATGAAACCATGTTGTGAAAAGCAAAAGAAAATCAATCTCTGATTCACAGCTGTTCCCAAAATAGCAGTATGTCTTTGCAAATCCATTGTTGCCTGCACTGAGGAAGGAACAAAGAGCTTGAGGGATAAGCACATTCTGCTCTCACCTGTCCTCATTTTTCATCCAGTTCATGTCAGATCTCACTGAACAAAGATCCTCACTGGATTGTCAGGATATTTAAAGACAGAAATTCATGCTGTATGTGCAACATTGTCCTGTTTTATTGTAGCCATGATTGCTGATATGGAGTTAACCTACTTCAGCTGAGTGTGGCAATGATGTGCAAAGGGTGGGGAAAATATACCAGTGACAACAGTTGCGACCCTTTTCCATATAACTAACCTTATTCAAACATGCAACAACTTGGGAAACAAGCCTCCCATTCAACTTCGTGACAAAACCCAGATGGTAATGGCTTTTCTTGGCTTGGAAACACGAATGTAGATAACTTACAGCAGTGTCTTCCTTTGCTTTCTTCCAG
Seq C2 exon
GCCGCACTATCATTCTTTCCACACATCACATGGATGAGGCAGACATTCTGGGGGATCGAATTGCCATCATTTCTCATGGCAAGCTCTGCTGTGTTGGTTCTTCTCTTTTCCTGAAGAACCAGCTGGGAACAGGCTATTACTTGACCCTTGTCAAGAAAGATGTGGATTCCTCTCTGAGCTCCTGTCGAAACAGTAGCAGCACAGTGTCCTATCTGAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015433:ENSGALT00000024891:22
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:
PF0000522=ABC_tran=PD(17.9=55.3)
A:
NA
C2:
NO
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:
GCATGCAGAGGAAGCTCTCAG
R:
AGGACACTGTGCTGCTACTGT
Band lengths:
345-891
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]