DreINT0023610 @ danRer10
Intron Retention
Gene
ENSDARG00000013500 | abca2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:ZFIN;Acc:ZDB-GENE-050517-1]
Coordinates
chr5:24614324-24615720:-
Coord C1 exon
chr5:24615439-24615720
Coord A exon
chr5:24614537-24615438
Coord C2 exon
chr5:24614324-24614536
Length
902 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGT
5' ss Score
7.7
3' ss Seq
GTCTGTTTTGTGTGTCTTAGATG
3' ss Score
9.94
Exon sequences
Seq C1 exon
ACATGAAGGACTCTCCAGGCGGAGCATCAGCCGGGAAGCCGTCAGGTCTGTTAGGAGGGCCTCAGTGTGAAGGAGCTCCAGCCGCTGCTGTGATGAGGCCAGAGGTGGAGCTCAGCAACCTGATGATGTGCTCCAGGCTGAGCCCAAGCCAAGCATCCCTGCAGTCCGGCTCTTCTCTGGGCTCAGTGAGAGGAGATGAAGGGGGTCCCTATTCTGAGTTCTATGGAGACTATTGCCCACTGTTTGACAACGGTCAGGATCTGGACTCTGCCAGTCTCAGAG
Seq A exon
GTCAGTAAAATAATGTTAATTATTATTATTAGTAGTAGGAGTAGTAGTATTAGTATTATTAGAATTTTTCTTAGTCTTAGTATTATGCACAGTTTATTTAATTATTGATTCTCTTTGCACATTTGACATCAGCTCTGTGTGATTTCTAAAATCAGTTTTTTTTAGTACTGATTGGAAATAATGGTTATAAACTAATTCTTACCTTTTTGGAGGCATAACTTGAGTGCAATGCATCCACTAAGCCAACTTTTGTTAAGTATGTTATATAAAATATTTCTTAAATAAATAGTTTATTGGATGAGGGCCCTAATTATCTATCTATTATTAAAATTATTACTAATATTAGCTGCAGTAGTAGTCAATTATTTAATATTTTAGTATCATATTAGTTAGATATATAATTGTTCGTTTATCTTATTTTGGCTTCTTGCTGTGAGGCGACTGTGCTAACCACTAAGCATAATAACAATTAGTATTATAGTATTTTATAATATAATGAAATTAATTAATCTTTTATAATATTAAAACATTTTGAGATTGTCTTTGCAGTTGAAACTGTTTAATTAGGGTTTGTGTAATTAAAAAACAAACTCGGCATTTAATTAACAGCCCTGATTACTGACAGTTGTTCAGTTGAGTTGAATTTTTGTTGTAATTAATTAATTATTTAATATTTAACCCATTTATACATGAATAACTCTACTAGACATTATGTTGATGGACTAGGAGGGAACCCACTAGAGCTTACAAGCTGTTCTTTTGTCACTATATATATATATATATATATATATATATATAGCTCTGAAAAGGAACATTTTTCAGGGGCAGCTCTCACTTTGCGAGTGCACTTCTGAAGTGCCTGAAGGTAACAGATAAAGTGTAGTCTGTTTTGTGTGTCTTAG
Seq C2 exon
ATGAAGAGTCATCTCCTCAGCCCACTGTACTCGAGGGCCAGGGCAGCTTCAAGCTCGATGGCTGGTGGCTTAAACTCCGCCAGTTTCATGGGCTGATCGTGAAAAGGTTTCACTGTGCCAAGAGGAACACCAAGGGCATTTTCTCTCAGATTCTGCTGCCTGCTTTCTTCGTATGTGTGGCAATGACTGTGGCTCTGTCTGTGCCTGAGATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013500:ENSDART00000141554:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.368 A=NA C2=0.167
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
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCCGTCAGGTCTGTTAGGA
R:
ACGATCAGCCCATGAAACTGG
Band lengths:
347-1249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]