DreINT0023729 @ danRer10
Intron Retention
Gene
ENSDARG00000074041 | abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:ZFIN;Acc:ZDB-GENE-050517-5]
Coordinates
chr12:38670220-38670628:+
Coord C1 exon
chr12:38670220-38670390
Coord A exon
chr12:38670391-38670514
Coord C2 exon
chr12:38670515-38670628
Length
124 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGA
5' ss Score
8.24
3' ss Seq
ACTCGTTTCTTCTTTTTCAGGCT
3' ss Score
10.81
Exon sequences
Seq C1 exon
CTGAAGTGTCGCTCAACGTTGAGGATCTCTGGTCTTGTTCCTTCTGCGTACTGGTGCGGTCAGGCAGCTATCGATGTCCCGTTCTATTATCTGATCTTAACCTGCATGACCAGCACCCTCTTTGCCTTCCATTCTACAAACCTGCTAACCTCTCATAACATCTTGTCTGTG
Seq A exon
GTAAGAAAATCTCACAGACATGTCACAGTACAACCAAGACATTTATATTGTACAAGTTATTTTTCACTTCAAGAAGATAGCATAGCATAGAAGGTTACAGTCTGACTCGTTTCTTCTTTTTCAG
Seq C2 exon
GCTCTTTGTCTGATTGGCTTTTCTCCAGCCATGGTTCTCTTCACATACTGCGTGTCCTTCATGTTTGTCAGAGTCCAGAGCAATAGAGACTTCTTCTCTGTTGTCTCAATGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074041:ENSDART00000155563:24
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(15.5=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(10.2=100)
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:
TGAAGTGTCGCTCAACGTTGA
R:
TGCTCTGGACTCTGACAAACA
Band lengths:
252-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]