GgaINT0064437 @ galGal4
Intron Retention
Gene
ENSGALG00000015433 | ABCA1
Description
ATP-binding cassette sub-family A member 1 [Source:RefSeq peptide;Acc:NP_989476]
Coordinates
chrZ:54574121-54575155:-
Coord C1 exon
chrZ:54574934-54575155
Coord A exon
chrZ:54574326-54574933
Coord C2 exon
chrZ:54574121-54574325
Length
608 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGT
5' ss Score
11.37
3' ss Seq
TTCATGTCTCTCATTTGCAGAGC
3' ss Score
11.15
Exon sequences
Seq C1 exon
ATGGGGAATCTGCTGCCTTACAGTGACCCTAGTGTGGTGTTCGTTTTCCTCTCAATCTTTGGCATTGTGACCATCCTGCAGTGCTTTCTCATCAGCACCGTGTTCTCCAGGGCCAACCTGGCAGCTGCCTGTGGAGGCATTGTGTATTTCACTCTATACCTACCCTACGTGCTGTGTGTTGCCTGGCAGGACTATGTCAGCTTCTCGCTCAAGATCTTTGCG
Seq A exon
GTAAGTCTTAAGGAAACTGTCCAGGGCATTGGGCCTCCACCACTGTGGCACTGAATCGCTCTCTAGTTGGGACACTAATTATTAGTGGGTAGGGGGCAGTAGGAGGGTGATTTCCATTGTAAGAGTCTGCGAGAGTTGGGCTTGGTGAAGAGACTGATAGAACTGGCAGGGAGGATTTTGTTGCCTTCGGTAGGAAAGTAATTCTGCTACATTAAGCTCCCTTTCTTTCTCTGTATGCTGTGGTGCTATAGCACCAGATATGCAAGGTTGCAGGAGTTATCTGACTTTCTTCTCTACAGTGCTTCTTTATCTGCTTGGGGAGGGTGGCCTAGTGATGTTTTCCCTTGAATGAAAGTCCAAGCATAATGGAAGGAGTAGGAAAACAAACTAATTTCTAGGGAGTGGTCCACCAGAGGTTTCAGGCTTTACTTACTTGAATGAAACAAAAATAGTTTCCCAGCCCCTCTCTACAGATCTAGTCATGGTCCTTAGACTTCTGACTTTTCCTTTAGGGCCTCTTGACCACGTCCTTGAGCCCTGCACTAGAGATGAGGCGCCCAGTTATCGAGTAGCAGTGAAAAATGTGTGTTCATGTCTCTCATTTGCAG
Seq C2 exon
AGCCTGTTATCTCCAGTAGCCTTTGGCTTTGGTTGCGAGTACTTTGCACTGTTTGAAGAGCAGGGAGTTGGTGTTCAGTGGGACAACTTCTTTGAGAGCCCACTAGAAGAAGATGGCTTTAGCATCACCACATCTGCTGTAATGATGTTGTTTGACACGTTCCTCTATGGGGTCATGACCTGGTACATTGAGTCTGTCTTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015433:ENSGALT00000024891:16
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:
PF126982=ABC2_membrane_3=FE(29.3=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(24.5=88.4)
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:
TTGGCATTGTGACCATCCTGC
R:
TCATGACCCCATAGAGGAACGT
Band lengths:
342-950
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]