DreINT0023480 @ danRer10
Intron Retention
Gene
ENSDARG00000074749 | abca12
Description
ATP-binding cassette, sub-family A (ABC1), member 12 [Source:ZFIN;Acc:ZDB-GENE-030131-9790]
Coordinates
chr9:40918909-40919592:-
Coord C1 exon
chr9:40919505-40919592
Coord A exon
chr9:40919015-40919504
Coord C2 exon
chr9:40918909-40919014
Length
490 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
TAATATTTGTGTTCACACAGGTT
3' ss Score
7.93
Exon sequences
Seq C1 exon
ATATGGAGGCTGGGAGTTTGGAAAGCCTCTTCCCATTGATCTTAAGATGGACATGTTAGATGTGCCAGCAAACAGAACCCTTAGTAAG
Seq A exon
GTAATTTGGATGAGTGATATAACATTGCCCCAATGGCAAAGTGGCTCATTGTCCCAGCATAGCAGTTTATGTAGACACTAACAGGCTCGGCTCCAAAATCAAGTAAGCTGCCACGTAGGCAGTATTTTAATGCATCATAATCACCCTCCTGATGCGAAAACCGTTTCAAAAGGTAGGCTGCGGAATTACATTGCTTTCGAAAACTAAAACTGTTGAAGCAGTATTGCATGAGTGCTTTAAACATTGCGTTCTTTATGGTGAAAAAAAGAAATTTTTCAAGAGAACAAATGAAACTAAATATCATTCAGTAACAAAAGTTGATTCCAAGCATGCATTTATTATTTTACACAATAGTTATATGTATATTTACACAGTTTAGAATAACAAATTGTTAACTCCTTGATAAATCAGTGTAGCTCAGGAACAGAGCCTTAGACTGACTTTTTTATTACCATTGTGATGGATTGTATTAATATTTGTGTTCACACAG
Seq C2 exon
GTTTGGTATAATTCAGAAGGTCACCACTCTATGCCAGCCTACCTCAACAGCCTTAACAACTTTTTCCTGAGATCCAGTTTGCCACCTGAGAAACGATATCAATACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074749:ENSDART00000138634:21
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(6.2=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(7.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATATGGAGGCTGGGAGTTTGGA
R:
TTGATATCGTTTCTCAGGTGGCA
Band lengths:
190-680
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]