DreINT0023510 @ danRer10
Intron Retention
Gene
ENSDARG00000074635 | abca1a
Description
ATP-binding cassette, sub-family A (ABC1), member 1A [Source:ZFIN;Acc:ZDB-GENE-031006-12]
Coordinates
chr1:51966913-51968194:+
Coord C1 exon
chr1:51966913-51967026
Coord A exon
chr1:51967027-51968022
Coord C2 exon
chr1:51968023-51968194
Length
996 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
AGCATTGATTGGTCTTTTAGCTG
3' ss Score
4.55
Exon sequences
Seq C1 exon
GTCAGTATGGCATCCCTCGACCCTGGTACTTCCCTTTCACCAAGTCATACTGGTGCGGAGAGAAATGCGGATGGACAACATCAGTGCCAAGTAACAGGAAAGAAAACGCGGAAG
Seq A exon
GTATGAAAATAGAGCACATTTATTTGTTTGTTCATTCGTTTGTTCGATTTTTTGTTTGTTCATTCATTTGTTTAATCTGTTTGTTTATTCATTCATTTGTTTGTTTATTCATTCATTTGTTTGTTTATTCATTCATTTGTTTGTTTATTCATTTGTTCATTCATTTGTTTGTTCATTCAATCGTTTGTTTGTTGATTTGTTCTTTATTTGTTGTTTGTTTAATAAATGTTTCGTTTGTTTGTTTTTTCGTTCGTTAGTTCAATTAATCGTTTATTAATTAATTCATTTGTTTGTTTGTTTATTTAGTATCTTTTTATGTTTTTGGTTCACTTGTTTTTCATTCATTTGTTCATTCATTCATTCATTCATTCATTTGTTTGTTTGTTCATTCAATCCTTCATTTGTTTGTTCATTCAATCCTTCGTTTGTTTGTTCATTTGTTTTTTGTTTGTTCATTTGTTTGTTTGTTTATTCAATCTTTCATTTGTTTGTTTGTTCATTCATTTGTTTGTTCATTTATTCATTTGTTTGTTAATTTAATCTTTTGTTTGTTTGATCATCCGTTTGTTTGTTCATACAGTCGTTTTTGTTAATTCAATCATTCATTTGTTCATTTGTTCATTTATTAGTTTGTTTAATTTTAAACAATTTTAATTTCAATTTTAATTTGATCATTTAATCTTTCGTTTGTTTCTTCGTTAGTTCATTGTTTTATTTGTTCATTGATTTGTTTGTTTATGATTTTTTTGTTTGTTTATTCATTCATCGATTTGTTTGTTCATATATTTATTAATAGCAATTAATTAAAATTATATTTTTAATTACAGAATTACTGAATTATCTATTTTTTGTATAATATATATTATATTTTTGATTTTATTATTAAATATATTATTATATATAAATTAATTATAAATTATATTTGGACATTCCGTTTTTTAAAAATGTATGAACGTGAAATATAAATACTGAAATAAGCATTGATTGGTCTTTTAG
Seq C2 exon
CTGTGTGCATTGAGGAAGAGCCAGCCCATATAGATCCTGGTGTTTACATCGAGAACCTGATGAAGATCTACAGCAATGGTAAAGTGGCAGTGGACGGTTTGACTCTGGGCTTTTATGAGGGCCAGATCACTTCTTTCCTTGGCCACAACGGCGCTGGAAAAACCACAACCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074635:ENSDART00000142465:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(18.6=46.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGTATGGCATCCCTCGACC
R:
TGGTTTTTCCAGCGCCGTT
Band lengths:
278-1274
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]