DreINT0023552 @ danRer10
Intron Retention
Gene
ENSDARG00000079009 | abca1b
Description
ATP-binding cassette, sub-family A (ABC1), member 1B [Source:ZFIN;Acc:ZDB-GENE-030131-9826]
Coordinates
chr14:6168928-6169354:+
Coord C1 exon
chr14:6168928-6169044
Coord A exon
chr14:6169045-6169159
Coord C2 exon
chr14:6169160-6169354
Length
115 bp
Sequences
Splice sites
5' ss Seq
CGGGTTTGT
5' ss Score
3.45
3' ss Seq
TTCTCTCTCTCCAAACGCAGACA
3' ss Score
8.39
Exon sequences
Seq C1 exon
GTCAACAAGACATTTCAAGAGCTCGGAATTCTGCGAGATTTAGGAGGAATGTGGGAAGAAGCCAGACCGAAGGTTTGGAACTTCATGGAGAACAGCAATGAAATGGATCTAATGCGG
Seq A exon
GTTTGTCTTGTCTTCCTTTTATTATCTCCCCCATGTGGTTGGTGGCTGCATTGCAGGATGGGAACTGCTCAGTATTACTGATAATTCATTTTTATTTCTCTCTCTCCAAACGCAG
Seq C2 exon
ACACTTCTACTCAACAACCTCACGGCTAATTTTTTTAGTGCCCAGTTGGCTGGGACTCAGTGGAGCGTAGAGGATGTGATAAGCTTCTTGTCCAAGCACTCTGAAGACACGCGTCCCCAAGGAACAGCGTTCACATGGCGGGATGTCTTCAATGAGACCGACCAGGCCATTATGAGCATATCCCGTTTCATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079009:ENSDART00000051556:11
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=0.015
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGAGCTCGGAATTCTGCGA
R:
AAGACATCCCGCCATGTGAAC
Band lengths:
251-366
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]