DreINT0024345 @ danRer10
Intron Retention
Gene
ENSDARG00000016818 | abcg2d
Description
ATP-binding cassette, sub-family G (WHITE), member 2d [Source:ZFIN;Acc:ZDB-GENE-050517-38]
Coordinates
chr1:49942589-49942887:-
Coord C1 exon
chr1:49942828-49942887
Coord A exon
chr1:49942704-49942827
Coord C2 exon
chr1:49942589-49942703
Length
124 bp
Sequences
Splice sites
5' ss Seq
TTCGTGAGT
5' ss Score
7.9
3' ss Seq
TTTGTTTTTCTCTCTCTCAGGTT
3' ss Score
12.55
Exon sequences
Seq C1 exon
TGGGATCATGAGACCTGGTTTAAATGCTATTTTGGGTCCTACGGGAAGTGGCAAATCTTC
Seq A exon
GTGAGTACATATTCGACGACTCCAGATTGAGGAGGAGATTATTGTTTTGGTGTTTGACAAGCTTTTAGAGTATCTTTCCTGACAGCTTCCTCCTGTAATGTGCTTTTGTTTTTCTCTCTCTCAG
Seq C2 exon
GTTTTTGGACGTCCTTGCTGGCAGGAAGGATCCCGCTGGTCTTTCTGGTGAAGTTCTCGTCAACGGAGCCCTACAGCCGGCCAATTTCAAATGTCTTTCTGGCTACGTTGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016818:ENSDART00000022733:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.051
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(13.0=90.5)
A:
NA
C2:
PF0000522=ABC_tran=FE(26.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGATCATGAGACCTGGTTT
R:
GGACAACGTAGCCAGAAAGACA
Band lengths:
173-297
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]