GgaINT0064424 @ galGal4
Intron Retention
Gene
ENSGALG00000015433 | ABCA1
Description
ATP-binding cassette sub-family A member 1 [Source:RefSeq peptide;Acc:NP_989476]
Coordinates
chrZ:54615891-54616918:-
Coord C1 exon
chrZ:54616777-54616918
Coord A exon
chrZ:54616013-54616776
Coord C2 exon
chrZ:54615891-54616012
Length
764 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
TTTCCCATCTCTTCCACCAGAGT
3' ss Score
9.4
Exon sequences
Seq C1 exon
GTCACTTCCCAAACAAAGCTATGCCCTCAGCAGGAACATTGCCCTGGATACAGGGGATCATCTGCAATGCCAACAACCCTTGTTTCCGCTACCCAACACCAGGGGAATCTCCTGGTATTGTTGGAAACTTCAATGCGTCCAT
Seq A exon
GTGAGTCTGCTTGCTTTTTCCTCATCTCTTTTCTTTGGGGAGCATATGGAAAGGGCATATTTTGAAGTCACCTGTTCTTTGTGTAACCCTGTGCTGTTGAGAACCAAGTCCGTTCTCTTACCAAGCATTCTGAATTCAGCCCATATAAAGGTGAGATGCAAGGTCTGTTTTCCAGAGAGCCCCTTTCCCTGGCTAACAAACCTTGAAGATGAATGGTGTACGAGTGAGAAACAGTCTAAGAGCAGGATCTGATGGGACTCTCCTTCTTGTCGTTTATTGCTGGCTAATGTATTGCAGGAAGCTTTTCTTACTGTCAGCATTGTTACACCCTGCCTTGTTTGCTGAATTTGTATGGTCAGGACAGCTAAACGTGATGCAGAACAAAAGGTGCCTACAACCTGGAAGAACACTTGAAAAGGGACAAAGACATATTTAAATTATTGAGCTTCTAAGTGGAAGCAGTTTACAAGCAGCAGGAGACCCTCTCCATCCTAATCTGAACTGCTTTCAAATGCTTGGAGGTTACCAGCCTAACTTGGTTTGACCCTGCTTTAGCAGTCCTCTTTTATTAGGCTCCTTAATTTTCCCAGGAATCATCACCAAAGAAAGGGTTCATTGTACTGGAGAGAGCAGTGGCATAACTGAAGAGACTGAAGTTTGAAACTGGGACATGAAATTTTGTCTGTGGATACTGGCTTACAGAGCTGATGACTGCTGTTTTTTTTTTTCTTGTTGTTTGTTCGTTTTCCCATCTCTTCCACCAG
Seq C2 exon
AGTTTCCCGCCTCTTTTCAGATGCCAAGAGGTTACTCTTGTACAGCCAACAGGACACAAGCATAAAGGATGTCCAGAAGGTCTTGGCAAAACTGCGGAAACTGGGAAACTCCTCTGGCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015433:ENSGALT00000024891:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
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:
GTCACTTCCCAAACAAAGCTATGC
R:
AAGCCAGAGGAGTTTCCCAGT
Band lengths:
262-1026
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]