DreINT0023739 @ danRer10
Intron Retention
Gene
ENSDARG00000074041 | abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:ZFIN;Acc:ZDB-GENE-050517-5]
Coordinates
chr12:38675763-38676018:+
Coord C1 exon
chr12:38675763-38675838
Coord A exon
chr12:38675839-38675923
Coord C2 exon
chr12:38675924-38676018
Length
85 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TATATATTTTTCCATACCAGTTG
3' ss Score
7.21
Exon sequences
Seq C1 exon
TGTTGTGAGTGCTCTTGAGCTTAAGGATCATCTTTACAAACAGTCAAAAAACTTGTCTGCAGGGCTAAAGAGGAAG
Seq A exon
GTGAGTCCTACATTTAAATAAATATAAAATATAAAAAAGCTGACTTTGTCTAACGTTTTTTTAAATATATATTTTTCCATACCAG
Seq C2 exon
TTGTGCTTTGCACTAAGCATGCTGGGAAATCCTCAGATAGTTTTGTTGGATGAACCATCTACAGGGATGGATCCTAAATCAAAACAACGCATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074041:ENSDART00000155563:33
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=0.125
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(17.1=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(13.7=62.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTGTGAGTGCTCTTGAGCT
R:
TGCGTTGTTTTGATTTAGGATCCA
Band lengths:
167-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]