DreINT0000120 @ danRer10
Intron Retention
Gene
ENSDARG00000074221 | ABCA7
Description
ATP-binding cassette, sub-family A (ABC1), member 7 [Source:HGNC Symbol;Acc:HGNC:37]
Coordinates
chr11:5667139-5667629:+
Coord C1 exon
chr11:5667139-5667344
Coord A exon
chr11:5667345-5667452
Coord C2 exon
chr11:5667453-5667629
Length
108 bp
Sequences
Splice sites
5' ss Seq
CAAGTATAT
5' ss Score
1.98
3' ss Seq
TATGTTTTATTATGTGACAGATT
3' ss Score
7.72
Exon sequences
Seq C1 exon
TGCTTTTCTTTGAATAAATTGGAGGGTCTGACCACAGAGGGTGAGATGGTAGAACGAGCTCTGGAGTTGCTGGAAGATCGTCAGTTCTGGGCTGGAATCGTCTTTCTCCTCCCGAACTCTTCATCATCCGTACTGCCTCCACATGTCAAGTACAAGATCCGCATGGACATAGATGATGTCACCCGCACAAACAAGATCAAAGACAA
Seq A exon
GTATATTGAAATGTCACACACACTTAAACTTACAGAAAATTATCATTATGTAGTGCTTTCGTGGTCATTTGTTTAATAAAGCTGATGTTATGTTTTATTATGTGACAG
Seq C2 exon
ATTTTGGGACCCAGGCCCGGCTGCCGAACCGTTCAGTGACATGCGCTATGTTTGGGGTGGTTTTGTTTATGTACAGGATTTAGTTGAGAGAGCCGTGACACGCTTGCTCACTGGTAAAGAGGCCAAAACGGGAATATATGTGCAGCAGATGCCTTACCCCTGTTTTGTTGATGATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074221:ENSDART00000165385:11
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=PU(15.4=71.0)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(18.5=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:
CAGTTCTGGGCTGGAATCGTC
R:
TTACCAGTGAGCAAGCGTGTC
Band lengths:
242-350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]