DreINT0023675 @ danRer10
Intron Retention
Gene
ENSDARG00000062661 | abca4b
Description
ATP-binding cassette, sub-family A (ABC1), member 4b [Source:ZFIN;Acc:ZDB-GENE-050517-4]
Coordinates
chr2:15592353-15592751:+
Coord C1 exon
chr2:15592353-15592530
Coord A exon
chr2:15592531-15592619
Coord C2 exon
chr2:15592620-15592751
Length
89 bp
Sequences
Splice sites
5' ss Seq
CTTGTGCGT
5' ss Score
3.56
3' ss Seq
ATACACGTCTACTCTTGTAGGTC
3' ss Score
7.23
Exon sequences
Seq C1 exon
AAAATCCATTCTTTGAGCCTGAGCCGGAGAGTCTGTTAATAGGAGTGTCAGTACAGGATTTGGTGAAGATGTATAATCGATATTCCAGACCTGCTGTGGACTGTCTCAATATGAACTTCTATGAGAGCCAGATCACTTCTTTCCTGGGTCACAATGGGGCAGGAAAGACCACCACCTT
Seq A exon
GTGCGTTAGGACTGTCTTTTTATCTATGAAATGGAAGCATGAATTTAGTGTATTTTGTGTAATTCATATATACACGTCTACTCTTGTAG
Seq C2 exon
GTCCATTCTGACTGGGCTATTTCCACCCACCTCTGGAACAGCTTACATTTATGGAAGAGACATTCGTACAGAGATGGACGCCATACGACAGTCACTGGGCATGTGTCCACAGCACAACATCCTCTTCAAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062661:ENSDART00000144171:20
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:
PF0000522=ABC_tran=PU(18.6=45.0)
A:
NA
C2:
PF0000522=ABC_tran=FE(30.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTCCAGACCTGCTGTGGACT
R:
ATGGCGTCCATCTCTGTACGA
Band lengths:
181-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]