DreINT0023565 @ danRer10
Intron Retention
Gene
ENSDARG00000079009 | abca1b
Description
ATP-binding cassette, sub-family A (ABC1), member 1B [Source:ZFIN;Acc:ZDB-GENE-030131-9826]
Coordinates
chr14:6182243-6182936:+
Coord C1 exon
chr14:6182243-6182318
Coord A exon
chr14:6182319-6182697
Coord C2 exon
chr14:6182698-6182936
Length
379 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGA
5' ss Score
10.53
3' ss Seq
GTGTTTACTGTGTTCTGTAGGAA
3' ss Score
9.81
Exon sequences
Seq C1 exon
GATGATAATGCATCTGAGAGCAGTTCGGATGCTGGTCTAGGTAGCGACCAAGAGAGCGAAGCAGCCACAGCAATCG
Seq A exon
GTAAGACAACACCTGACCTAAAACCTTAAAGAAACACTCCACTTTTTTTGGAAATATGGTCATTTTTCCAAGTCTCCTAGAGTTAAACGGTTAAGTTTGACTTTTATTGAATCCATTCAGCCGATCTCTAAGCAGGAGCACTTTTAGCTTAGCTTAGCATAGCATTAATTATTAAATCAGATTAGACCAAAATCCAAAATAATCAGTTTTAATTAGCCATAGAAAATATAGTTTAATTTTTTTCTGTTTAGTACACTATGTAACTACAGAGGAGTTAAGTAATAGTTTGTAAGTAGTAGTTAAAAATAAGCCTTTTTCCTATTTTTTGCTTATCCTATGCTATGCAAACTATTACTTAAGTGTTTACTGTGTTCTGTAG
Seq C2 exon
GAACTTCTTGGCCCGAATCTCCTGTTGTGCCAGTTGATGTAACCATCATTTCCAGGCTAATCCTAAAGCATGTTCCTGCTGCCCGCATGGTGGAAGACCAAGGCCACGAGATCACATATGTGTTGCCATATGAGTCTGCTAAAAACGGTGCTTTTGTTGAGCTCTTCCATGACCTAGATGATCGGCTTGCAGACCTTGGCATTTCCAGCTATGGTGTCTCAGATACTACACTTGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079009:ENSDART00000051556:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.410 A=NA C2=0.022
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAATGCATCTGAGAGCAGTTCGG
R:
CTCCTCAAGTGTAGTATCTGAGACAC
Band lengths:
310-689
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]