DreINT0023629 @ danRer10
Intron Retention
Gene
ENSDARG00000013500 | abca2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:ZFIN;Acc:ZDB-GENE-050517-1]
Coordinates
chr5:24592577-24592857:-
Coord C1 exon
chr5:24592754-24592857
Coord A exon
chr5:24592670-24592753
Coord C2 exon
chr5:24592577-24592669
Length
84 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAG
5' ss Score
4.95
3' ss Seq
TCTGATGTCCTTGTTTGCAGTAT
3' ss Score
7.51
Exon sequences
Seq C1 exon
GATGAGCCCACCACAGGTATGGACCCAAAGGCTCGCCGTTTCTTATGGAACCTAATTCTTGACATCATCAAGACGGGCCGCTCAGTAGTGTTGACGTCACACAG
Seq A exon
GTGCAGTATCTAATATAAAGGCTATTTTGGGTTTTAAAAGAACAGACCATTTAATGTATGATGTTCTGATGTCCTTGTTTGCAG
Seq C2 exon
TATGGAGGAGTGTGAAGCGCTGTGCACTAGACTGGGCATCATGGTTAATGGCAGGTTCAAGTGTCTAGGAAGCATCCAGCATCTCAAAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013500:ENSDART00000141554:42
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=PD(2.8=11.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGAGCCCACCACAGGTATG
R:
TCCTAGACACTTGAACCTGCCA
Band lengths:
174-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]