DreINT0024346 @ danRer10
Intron Retention
Gene
ENSDARG00000016818 | abcg2d
Description
ATP-binding cassette, sub-family G (WHITE), member 2d [Source:ZFIN;Acc:ZDB-GENE-050517-38]
Coordinates
chr1:49941182-49942703:-
Coord C1 exon
chr1:49942589-49942703
Coord A exon
chr1:49941335-49942588
Coord C2 exon
chr1:49941182-49941334
Length
1254 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGA
5' ss Score
7.75
3' ss Seq
ATGTATGTGTGTGTGTTCAGGAT
3' ss Score
9.21
Exon sequences
Seq C1 exon
GTTTTTGGACGTCCTTGCTGGCAGGAAGGATCCCGCTGGTCTTTCTGGTGAAGTTCTCGTCAACGGAGCCCTACAGCCGGCCAATTTCAAATGTCTTTCTGGCTACGTTGTCCAG
Seq A exon
GTGCGAAATCTTTCTGATGCCTAATGCAAGACACTGCAGTAGAATAGGGTTAAAGGGATAGTTCACCATCATGTGTCTCCAGGTTTCTTTCTTCTGTTGAACATAAAAGAAGATATTTTGAAGAATGTTTGAAACTGGTAGCTATTAATTTTATGGAGGAAAACAAATACTGTGGGTGTCAATGGCTACTGGTTTACAACAGTCTTTAAAATGTATTAAAAAGTAGATACTTTAAAGAATGTTTGAAACTGATAGACAATAATTCTATGGAGGAATTCAAATACTGTGGGAGTCAACGGCTACTGGTGTCCAACATTCTTCAAATTGTCTTCAAAGAAAGACAAAATGCCATTGACTTTTTTGAGGCAAAACAAATACTGTGGGAGTCAATGTCTACTGGTTTCTAACATTCTTCAAGATTTACTCAGAAGATATTTTGAAGAATGTTTGAAACTGGTTGATATTGACTTTTTTTGAGGAAAGAGAAATACTGTGGGAGTCAATGGCCACTGGTTTCCAACATTCTTCAAAATGTCTTCAAAGGAAGATACTTTGAAGAAAGTTTTAAACTGGTGGTTATTGACATTTTGGAGGAAAATCAAATACTGTGGGAGTCAATGGCTACTGGTTTCCAACATTCTTCAAAATTTATTTAAAAGAAGATACTTTGAAGAATGTTTAAAACTGGTGGCCATTGATGTTTTTGAGGAAAGAAATACTGTGGGAGTCAATGACTTCTGGTTTCCAACATTCTTCAAAATGTATTCGAAAGAAGATATTTTGAAGAATGTTGGAAACTGGTAGCCATTCACTTTTTGGAAAAAATCAAATACTGTGGGAGTCAGTGGCTACTGGTTTCCAACATTCTTCAAAATGTATTTAAAAGAAGATACTTTGAAGAATGTTTAAAACTGGTCGCCATTGGCGTTTTGGAGGAAAATAAAATACTGTGGGAGTCAATGGCTACTGGTTTCCAACATTCTTCAAAATGTATTTAAAAGAAGATACTTTGAAGAATGTTGGAAACTGGTAGCCATTGACTTTATACAGGGAAAATAAATCCTGTGGGAGTCAGTGGCTACTGGTTTCCAACATTCTTCAAATTGTCTTCAAAAGAAGATATTTTAAAGAATGTTTGAAACTGGTAGCCACTGACTTTTTTTTAAGGAAATATAAATACTGTGGGAGTCAATGGCCATAGGTTAACTTACTGATTGTTTTATCCAATTTGTGTATGTATGTGTGTGTGTTCAG
Seq C2 exon
GATGACATTGTAATGGGCACTCTAACGGTGAGAGAGAACCTGAGTTTCTCAGCTGCTCTGCGTTTGTCTTCTCATGTCAGTCCCAGAGAAAAGGAGGCAAGAGTCAACCATCTCATCTCCGAGCTGGGCCTCAACAAAGTCGCAGATTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016818:ENSDART00000022733:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.051 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(26.0=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(34.2=100),PF030589=Sar8_2=PU(56.7=74.5)
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:
GTTTTTGGACGTCCTTGCTGG
R:
ATCTGCGACTTTGTTGAGGCC
Band lengths:
262-1516
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]