DreINT0023630 @ danRer10
Intron Retention
Gene
ENSDARG00000013500 | abca2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:ZFIN;Acc:ZDB-GENE-050517-1]
Coordinates
chr5:24592352-24592669:-
Coord C1 exon
chr5:24592577-24592669
Coord A exon
chr5:24592455-24592576
Coord C2 exon
chr5:24592352-24592454
Length
122 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGA
5' ss Score
5.11
3' ss Seq
TTCCTTTATATTTATTTCAGATT
3' ss Score
9.61
Exon sequences
Seq C1 exon
TATGGAGGAGTGTGAAGCGCTGTGCACTAGACTGGGCATCATGGTTAATGGCAGGTTCAAGTGTCTAGGAAGCATCCAGCATCTCAAAAACAG
Seq A exon
GTTTGAAACTAATTCTCGGCCACTAAAATGTATGATTCAGGAATTCTACATTTATGAATGTGGGCATCTGAGTGCATTTATGACATTTTGCAACACTGTTTATTCCTTTATATTTATTTCAG
Seq C2 exon
ATTCGGAGATGGATACATGATAACAGTACGCACTAAGACCACCGCTAGCGTTAAAGAAGTGATTCGGTTTTTTAACAGAAATTTTCCTGAGGCAATTCTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013500:ENSDART00000141554:43
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:
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:
TATGGAGGAGTGTGAAGCGCT
R:
TTAGAATTGCCTCAGGAAAATTTCTG
Band lengths:
194-316
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]