GgaINT0064466 @ galGal4
Intron Retention
Gene
ENSGALG00000015433 | ABCA1
Description
ATP-binding cassette sub-family A member 1 [Source:RefSeq peptide;Acc:NP_989476]
Coordinates
chrZ:54551795-54553154:-
Coord C1 exon
chrZ:54553013-54553154
Coord A exon
chrZ:54551930-54553012
Coord C2 exon
chrZ:54551795-54551929
Length
1083 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
TATGGTACTGTCTCTTGTAGGTT
3' ss Score
10.13
Exon sequences
Seq C1 exon
TATCCTGTCGAACATCCAAGAAGTCCATCAGAACATGGGCTACTGTCCGCAGTTTGATGCTGTTAATGAACTGCTGACAGGGCGAGAACACTTGGAGTTCTTTGCACTCCTCAGAGGTGTTCCCGAGAAAGAAGTTTGCAAG
Seq A exon
GTAAATGAAACACAATAGGACTACCCCACTAAAAAACTGTTGCTCATATCCCACAATGCTCATAATGTCATAGTGGTCTGCTTCTTTCTGAGTGATCACACTGAATCATTAAATTGCTCCTGTTTCAGCATTCACATTATGCTAACAGTATTTAGTCAATAACAGTTTTACAGTAACATACAGCACAGTTCTCAATATCAGTTCCTTGGGCTGGCAGCAGCTTTCACCATTTGTGTCTTGGGTTCTGTAGAACTGTTTCCAGATCCGGTGTCCAAAGTATGCCCCCACAGCTCTGAAAGCAGTGGCAAGTGAAAATGGCAAGCTCCTTTTTGGTTTGCAGGCAGGTTCTTCTGTGCTGTGCTTCAAGCACAGGGACCTGGTTCTGGTTCTGGTGCAAATGGTAACTGAATGTCTTTGCTAAACACTTTTTAGTCCCTAATGCAACAAGTGGCTGACAGTCGCAGTGTAAGTACTTCTGAATAATGACCCAGATCCTCTCCCTGAGGAGCTGAAATGCACAGTAGTGCCAGTTGCTGTGTGTCAGGAGAGACAGTGTCCCTGTTGCAAACCCATAGCAACTAAAAAGCCTGGATAAAGCATGTGCTGCTAAGACCACTACACCAGTAGTTGGCAGGGCTGGGCTGGTGTTGAACTGCATGGTCACTTTTGGCCCTGGCACAGGCTGCCCAGGACAGTGGGCATGGCACCAAGCTGCAGTAGTTCAAGGAGTGTTTGGACACCGCCCTCACACGTAGGGTTTGGATTTTGTGTGATCCTCTGAGGCCAGGAGTTGAATTTGATGATCTTTGTGGGGCCCTTCCATCTCCAGACATTCTGTGATTCTGTGAATTTGTGCTAATTACACAGCAGCCATCTGATTGTCCAGGCCCTCAGGGGCTGGTATGTATACACTTTGATCTGGGGGTGAATGGGGTGTTTCAAAACCTAGAGCTATGCCAGATTAAAGCCTCAGATGACTGGCCCTTCTGAAAAATCATCTTAAAGCCAAAGCTTGTAAGGAAAATCTCACTGTGTAGATGTTGCTGTGATTGATTCGTGAAGATATGGTACTGTCTCTTGTAG
Seq C2 exon
GTTGGTGAATGGGCAATTCGTAAACTGGGCCTTGTGAAATATGGAGAAAAATATGCAGGCAACTACAGCGGAGGGAACAGGCGCAAGCTCTCCACAGCAATAGCCCTCATTGGAGGGCCACCTGTGGTATTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015433:ENSGALT00000024891:45
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=FE(32.4=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(30.3=100)
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:
CCTGTCGAACATCCAAGAAGTCC
R:
ACAGGTGGCCCTCCAATGAG
Band lengths:
264-1347
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]