DreINT0023730 @ danRer10
Intron Retention
Gene
ENSDARG00000074041 | abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:ZFIN;Acc:ZDB-GENE-050517-5]
Coordinates
chr12:38670515-38672059:+
Coord C1 exon
chr12:38670515-38670628
Coord A exon
chr12:38670629-38671921
Coord C2 exon
chr12:38671922-38672059
Length
1293 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
GTTTTGTTTTCTATCTATAGGTG
3' ss Score
11.14
Exon sequences
Seq C1 exon
GCTCTTTGTCTGATTGGCTTTTCTCCAGCCATGGTTCTCTTCACATACTGCGTGTCCTTCATGTTTGTCAGAGTCCAGAGCAATAGAGACTTCTTCTCTGTTGTCTCAATGATG
Seq A exon
GTGAGTCTTCACACAGCTTTCCTATGACCTTCAGATAATATTAATATAGAACAATTGTGTTCAGTCTTTCTCAAGTCATGGAAAAGTCATTGGGTCAAAGATGAGATGTTACATTTTGGTGTGCACATCAAATTAAATGTACAAGTTTTTTTTATATTGATTGCAAAAAGTAATGTTCTTACTTTTTTTTCTGTGAGAATGTCCAAGCTAAAAAAAATTTGGCTTGTTTTCAGAAATAATAAGTCAAAATTAGGTGTGTTTTCCGTAAAATGTGCAAAACTATGTGCCAATCAGGAAAACAAAATATTCTTATATCAAAGCGAAAAGAAGATTATTTTCCTTACCTCAAGGAAAACTCAATTAAATTTGATGTATTATTTCTGAAAACAATGTTTTTTGTTTGTCTATGAATCTTTTTCTTGATTTAAACATTTTTTTAATATTTGGACTAGAACCTAGACAAAAACTCATTTTTTTGCAGTTCACATTAAAGTGTGTACTTTAGTGTTTCAAATGACATTTTGTAAACATTTTTGTAGAAACATGGCTGAAAATTGTTATATATTTTGGAATCTACTTGCTATAATATGTAAGTGAATAGGTGATCGAGGTAAATTTGATTTATATCATAAATGATTAAAAAGCACATGCTGTCAAATGGGTGAAACCTAGTGGTTTATCCTAATTTGAAGATTAAAAATAACAATTTAGTATATTGTGGCTGTATATTATGGATGACCATTAAATTATGTTTTTTTTATTTAGTCACTATTATTCTAAATAAACCTCACAGAATTTTTGTGATTATACAGTTAAAGTCAGAATTATCAGCCCCCTGAATTAATACCCCCCTGTATATTTTTCCCCCAATTTATGTTTAACTGAGAGATTTTTTCAGCACATTTCTAAACATAATAGTTTTAATAACTCATGTTTAATAACTGATTTATTTATCTTTGCCATGATGACAGTAAATAATACTGTCTAAAAACTAGATATTTTTCAAGACACTTTTATACTGCTTAAAGTGACATGGAAAGGCTTAACTAGGTTAATCAGGGTAATTAGGCAAGTCATTGTATAACAATGGTTTGTTCTGTAGACTTTAGACCTTAAAATGGTGTCTAATAATTCTGACTTCATCTATCTATCTATTTATCTATCTATAAATATATTTACTTTATTATTTATAATATTTCATTATGTGAGAAATGAGATGTTTTTTTTTTCTTCTAAATCAAACTTCAATTGTATTAAAATTGTTTTTTGTTTTGTTTTGTTTTCTATCTATAG
Seq C2 exon
GTGTGTGTGGTTTCTGCATCCATAGTCCAGCTGGCTCTTGTGAACGAAAGTGCATCTATGGCTCGTCTCCTCCACAATGCACTGTGTTTCTTCAGTCCACTCTACCCTCTAATGGGCTGCCTTAACTGCATTACTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074041:ENSDART00000155563:25
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:
PF126982=ABC2_membrane_3=FE(10.2=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(12.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCTTTGTCTGATTGGCTTT
R:
AATGCAGTTAAGGCAGCCCAT
Band lengths:
246-1539
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]