DreINT0000125 @ danRer10
Intron Retention
Gene
ENSDARG00000074221 | ABCA7
Description
ATP-binding cassette, sub-family A (ABC1), member 7 [Source:HGNC Symbol;Acc:HGNC:37]
Coordinates
chr11:5675262-5675707:+
Coord C1 exon
chr11:5675262-5675375
Coord A exon
chr11:5675376-5675535
Coord C2 exon
chr11:5675536-5675707
Length
160 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
ATTCCAATCCCTATTTGCAGCCC
3' ss Score
7.46
Exon sequences
Seq C1 exon
GGCAGTATGGCATTCCCAGACCTTGGTATTTTATCTTCCAGCTGAATTACTGGGGTGGGGTTCCCTTAGAGTTGGGATTACCCATTCCTCCAGCACCTAGAGAGGAACAAGATG
Seq A exon
GTAAGGGCATCAAACTGCGAAAATCCCCCTGTGTTTGTTATACAGAAGTTTTAAGTGTGTGTTTTTGCTCAGAATATTTGAATTAATGCTGTTGGGTGATTAGATTTGTGCATCATGTTTTTGATTTAATATTTACAATAATTCCAATCCCTATTTGCAG
Seq C2 exon
CCCGGATTGAAGCTGAGCCAACAAATCTCATTCTGGGAGTTTCTATAAGAAACTTAGTCAAGATTTATAAAAAGGGGGCCAAGCTTGCTGTTAATCATCTTAACATAAAGTTCTACGAGGGCCAAATAACATCTTTTCTGGGTCACAATGGAGCTGGCAAGACAACCACAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074221:ENSDART00000165385:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.077 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(18.6=46.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCTGAATTACTGGGGTGGG
R:
GGTTGTCTTGCCAGCTCCATT
Band lengths:
243-403
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]