DreINT0023636 @ danRer10
Intron Retention
Gene
ENSDARG00000013500 | abca2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:ZFIN;Acc:ZDB-GENE-050517-1]
Coordinates
chr5:24639154-24639732:-
Coord C1 exon
chr5:24639380-24639732
Coord A exon
chr5:24639302-24639379
Coord C2 exon
chr5:24639154-24639301
Length
78 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
ATTCTTGTTTGTGTTATCAGGAT
3' ss Score
7.82
Exon sequences
Seq C1 exon
TTGCGTCTTGAGCAGTCTAATATGTCTGGTCTGCTGGATCAGTCCCGTCTCGGGGCTCTCCTGAAGAACCTGGCTGATGTGGAGCGGCTGCTGAGGGACGTGGATCTACTGTCAGGTCTGGCCAGACTGCTGCCGAAAGGGGCCTGTGCGGGTCACCAGCCTCCTCCTCAGGCCAACACCACCTCCTGGAGCTCCAACTCTACCACATGGGGTCCCAATACAACTGACAGTTCTGTGGAGGAAGGAGAAGGAGCTTCTGAGAGCGAGGCAGAGGCTGAAAACCCCAAATCACAGTTTTCTGCATTTGTTCAGCTGTGGGCAGGACTTCAACCCATACTTTGTGGGAATAATAG
Seq A exon
GTGAGTTTGTTTTCTTATTGAATGTGAAATGTGATGTTTTTGTATTATTATTTTTATCATTCTTGTTTGTGTTATCAG
Seq C2 exon
GATTTTCGAACCAGAAGCGCTGAAACAAGGAAATATGAGTTCTCTGGGCTTCACCAGCAAAGAACAGAGAAATTTAGGATTACTTGTTCATCTCATGACTACAAATCCCAAAATCCTCTACTCTCCCATTGACTCAGAGGTGGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013500:ENSDART00000141554:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.407 A=NA C2=0.054
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGAGGAAGGAGAAGGAGCT
R:
TGGTGAAGCCCAGAGAACTCA
Band lengths:
175-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]