GgaINT0064440 @ galGal4
Intron Retention
Gene
ENSGALG00000015433 | ABCA1
Description
ATP-binding cassette sub-family A member 1 [Source:RefSeq peptide;Acc:NP_989476]
Coordinates
chrZ:54570351-54571193:-
Coord C1 exon
chrZ:54571022-54571193
Coord A exon
chrZ:54570483-54571021
Coord C2 exon
chrZ:54570351-54570482
Length
539 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGA
5' ss Score
5.58
3' ss Seq
CTGTTGTCTTTGTTCTTCAGGTC
3' ss Score
11.83
Exon sequences
Seq C1 exon
TCTGCAAGGAGGAAGAGCCTATGCATCTGAGTCTTGGTGTCTCCATCCAGAACCTGGTGAAGGTTTATCGTGATGGCAAGAAAGTTGCTGTGGATGGTCTCACACTGAATTTCTATGAAGGGCAGATCACATCATTTCTGGGGCATAACGGAGCAGGGAAAACCACTACCAT
Seq A exon
GTAAGATTAATGTTATACTTTAATATGGTGGAACTGTCTCTAAATATTACTGTTCCTGTCAGTACAACGCAACTGCTGTACAAGTGCAGTGGAGCTCCACTGATGATGCTTCACTGATTTCAGAGGAGCTTTGCTGACTTACTCCAGTTGTGCAACTGTTTAGAAGATGCACAGATACAGAGTACTAAAACTGGAGGTCGTTCAGGTTGAGGCTGTGCCTGAATGCATATGCTGGCAGCATTTTTTAGTAATCTCATTTGTGATTCTGACTTATCAGTGAAAGGAAATGAATTGAGCTTGAAAGGATGGGAAGCTTTTAGAGAAAAAGATACTTCCTTCAAGCACCACCACGTGGGCGTGCTTTGATCACTGCATTAAAACCACTGGAGCCAATTTTTCATCCATTAGTAATACGTATCTCTCAGATGACTTCCATGATGTGGGAGCTCCCAAAGGCTTTCACTCACTCTTCACTCATCCATTGTATCACGTACAGCATCCACTTCTTAGTGCTGGAATCTGTTGTCTTTGTTCTTCAG
Seq C2 exon
GTCCATCTTGACTGGCTTATTCCCTCCTACTTCTGGTACTGCCTTCATCCTGGGTAAAGATATCCGCTCAGAGCTCAGCACCATCAGGCAAAACTTGGGTGTCTGTCCACAACACAACGTGCTGTTTGATTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015433:ENSGALT00000024891:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.052 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(18.6=46.6)
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:
TCTGCAAGGAGGAAGAGCC
R:
AATCAAACAGCACGTTGTGTT
Band lengths:
303-842
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]