DreINT0023700 @ danRer10
Intron Retention
Gene
ENSDARG00000062661 | abca4b
Description
ATP-binding cassette, sub-family A (ABC1), member 4b [Source:ZFIN;Acc:ZDB-GENE-050517-4]
Coordinates
chr2:15617275-15617554:+
Coord C1 exon
chr2:15617275-15617395
Coord A exon
chr2:15617396-15617491
Coord C2 exon
chr2:15617492-15617554
Length
96 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TGCCATGCTCTTTATCTTAGACC
3' ss Score
7.94
Exon sequences
Seq C1 exon
GATATCAGACTATGGGATGAGCCTAGGTACAGATGAAGATGATGATGTAGCTCAGGAGAGAGAGCGCATTTACAAAGGGGGGAATAAAAATGACATCCTTCTAATCCGAGACTTGTCAAAA
Seq A exon
GTAAGTGATCAGATGCATTTACATAAAAAGAGATTATATTTTGTAATCAACGTCAATGGCTTTGATAAAGCATTATTGCCATGCTCTTTATCTTAG
Seq C2 exon
ACCTACAGGCGCAGAAAACGACCAGCAGTGGACAAAATCTGTGTAGGAGTTCCAGCGGGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062661:ENSDART00000144171:43
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.073 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(7.6=52.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGATGAGCCTAGGTACAGA
R:
CCGCTGGAACTCCTACACAGA
Band lengths:
167-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]