DreINT0023626 @ danRer10
Intron Retention
Gene
ENSDARG00000013500 | abca2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:ZFIN;Acc:ZDB-GENE-050517-1]
Coordinates
chr5:24652453-24653113:-
Coord C1 exon
chr5:24652992-24653113
Coord A exon
chr5:24652564-24652991
Coord C2 exon
chr5:24652453-24652563
Length
428 bp
Sequences
Splice sites
5' ss Seq
GAGGTCTGT
5' ss Score
5.39
3' ss Seq
TGTGTGTGTACTCTATTCAGGTA
3' ss Score
9.51
Exon sequences
Seq C1 exon
GTTTCACTGTGGGAAGCGTCCTCAGGAACCAGTCGATGTTCCAGCAGTTTCTGATGCGAAATCTCTCCCTGCCGAACGACACGTCCAGCCTGCTGCTCTCCTCCCCCGTCAATCTAAAAGAG
Seq A exon
GTCTGTCTTCTCACCTCATCTGCCTTTTTTGTCAAACTCAGGTCACACAGCAACGCTTTTGAAGTCTGAATCATGACTCAGCGTCGTGCTCCTCCGAGCCTCCTCGCGCTTTCATCCGCTTTGGAGTCTCCGCTCGGGTTTGCAGCTCCATTAGTGATTCCGCTGCATGACAACAGAGCGCGAGAATGTGCGATTGAATCTGATGCTTCAGGGCAGAGGAGCTCCAGCGCTTTAATGTGTGGGGTTAACGTGCTACAGTCAATGTGAAAGTGTTGAGATATGCTCTTGTGAGTTTGCGAGTGAAATGTTAATTTTCCTCAGGGAGTTTTGTTGCTTCTTTTCTCTGGCTATTTAAAGGATGTGTGTGAGATAGGAGTTTCTAAATCGGTGCCTGTGTGTGTGTGCCTGTGTGTGTGTACTCTATTCAG
Seq C2 exon
GTATATAATCTCATCTTTGGGACGTATCCCAAAGCGGGATCAAAGGGAGGAGAAAGAGATGAAGGACAGCACCAACTCAACAGTCCTGGAGAGAAGCTTGTACAGCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013500:ENSDART00000141554:4
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=0.473
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTCACTGTGGGAAGCGTCC
R:
ACAAGCTTCTCTCCAGGACTGT
Band lengths:
223-651
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]