DreINT0023717 @ danRer10
Intron Retention
Gene
ENSDARG00000074041 | abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:ZFIN;Acc:ZDB-GENE-050517-5]
Coordinates
chr12:38658300-38659841:+
Coord C1 exon
chr12:38658300-38658475
Coord A exon
chr12:38658476-38659721
Coord C2 exon
chr12:38659722-38659841
Length
1246 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGA
5' ss Score
8.24
3' ss Seq
AAAATATCTCTCTTTTTAAGGTA
3' ss Score
10.47
Exon sequences
Seq C1 exon
GCACAGCCACCATCTATGGCTCTCCAGTGGCAGAGATCGCAGAGGGGGCTGAGATGAAGCAGCTGGTTGGTATTTGCCCCCAGTTCAACATAATCTTTGATGTGCTCACCGTAGAGGAACACCTGAGGATCTTTGCCGCCATCAAAGGGATCCTGCCCTCTGATATTGACGGTGAG
Seq A exon
GTAGGAACTCCTAGTGGATCTAGAGAGCACATCAGCTGACCGCATGTTCACTCATTGGGAAATGCAGAAGCGAACATCACTACATCTACATGCAGCTGATTTGACAATAAATCCACCCTGCATAATCTGATTCATTCATTATAAAGTGACCAAACGCTATTCTCGGCAGTCTTGGTTCAAGAAGTTTTTTTTTTGTTTTTACTGATTTGTACAGGTACATTACTATTCAAAAGTTTGGGGTTGGTAAGTCTGCATTTATAAAAAAAGAGCCATAAAAACAATAATATTTGAAAGGGTAAAGCAGGATTTTCTGTAACATTTTCCTTCATTTTTAAATTATAATCCAAAAATCATTCCAGTGTGTTGTTTTGATGCTCAGGAAATGTTTTTTGATCATTTATTTAAAATAGTGTTTATTTTAAAAATCATTTATTTATTTATTATTTAATTTGACTTTCAGAAATCTTTCAGTAATATTTTTTGATTTTTACATGACATTCCAGAAATCATTCCAATGCGTTGGTTTGAAATGTTTGTTTGTTTGTTTGTTTGTTTGTTTGTTTTATTTTTTAAATATTTTTATATTTTATTAAATAGTATTTTTTTAATTAATTTTAATAAATTACCAAAATTTAATAAAACTAACACTAAAAACTATTTAATAAAATATTAAATAAGTAAATAATATAAATAAATAAATAAGTAATAATATAAATAAATTATGTATAATTTAATTATTTATTATTATAACATTATTATTATTATTTTATTTTATTTATTTTTTATTTCTTTCATTTTTTTAATATAATGTTCAGAAGAACAGCATATGTTTAAAATGACATATATATTATTCATGACAAAATGTAAAATATTACAGTAATTTTTCTTTTATTTTTACACTATATTCCAGAAATCATTCCAATTCGTTTTTTGATACTCAGGAATTTTTTATTTTATTTTATTAATGTTTTATTCAATATTTTTTTATTTTATTAAAACCTTGTTATATATTTAATTTATTAGTAATATTATTTTAGTAATTTTTTTTTTCATTTTTACTCTATTCCAGAAATCATTCCAATGCGTTTTTTAATGGTTATGAAATCTTTATTTATTTAATATTTTATTATATAAAATTTCATTTCAAACATTATTATACATTTATTATTCAATAATTCAATAAATGATTTTCCAGGCATCTTTTTTTTGTGTGTGTTTTCTGCTTTAAAATATCTCTCTTTTTAAG
Seq C2 exon
GTAAGGAAAGTTCTAAAGGATCTGGATTTGGAAAAGATTATGGATGCTCTGGCAAAAAACCTCAGTGGAGGCCAGAAGAGGAAGCTCTCTGTGGGCATAGCCATTCTTGGAGATCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074041:ENSDART00000155563:13
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=FE(39.5=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(26.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCTCTCCAGTGGCAGAGAT
R:
GGCTATGCCCACAGAGAGCTT
Band lengths:
262-1508
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]