DreINT0024306 @ danRer10
Intron Retention
Gene
ENSDARG00000100075 | abcg2a
Description
ATP-binding cassette, sub-family G (WHITE), member 2a [Source:ZFIN;Acc:ZDB-GENE-050517-35]
Coordinates
chr23:46074855-46075862:+
Coord C1 exon
chr23:46074855-46074969
Coord A exon
chr23:46074970-46075709
Coord C2 exon
chr23:46075710-46075862
Length
740 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAC
5' ss Score
7.29
3' ss Seq
TTTGTGTGTGTGTGCGTCAGGAT
3' ss Score
7.35
Exon sequences
Seq C1 exon
GTTTCTGGATGTTCTGGCGGCTCGTAAAGATCCCGCTGGTCTGTCAGGAGAGGTGCTGATAGACGGAGCACCACAGCCTCCAAACTTCAAGTGTCTGTCTGGATATGTAGTGCAG
Seq A exon
GTACACACACAAACGCACACACACACACACACACACACACACACACGCACACATACACACACACATACAAAGAAGGAAGGAGAGAGTGTGGTGCTGCTGCTGCTGGTGTGTGTGTGTTTGTGTGTGTGTGCATTCGTGTGGTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTCTGCATGTGTGTTTATGGGTGTGTGCATTCGTGTGTGTGTATATGTGTTTGTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCATTTGTGTGGTTGTGTGTGTGTGTGTGTGTGTGCATTTGTGTGGTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCATTTGGGTGGTTGTATGTGTGCATTTGAGTGTGTGTGTATGTGTGTGTTTGTTTGTGTGTGCATGTGCGTATATGTGTGTGTGTGTGTGTTTTTGTGGTTGTGTATTTGTGTTTAGGCATCTGTGTGTATGGTTGTGTGTGTGTGTTTGTGTGTCTGTGTCTGCATGTCTGTGTGTGCGTATTTGATTGTATGTTTGTGTGTGCGCGCGCATGTGGTTTTGTGTGTGTGTGTGTGTGTGCGTGTGCGCGTGCGTGCGTGCATGCATGTATTTGTTTGTATGCATGTGTGTGTGTGCATGTGTGTGCGTATTTAGTTGTGTTTACTTATGTGGTTTTGTATGTGTGTGCGTTTGTTTATTTGTGTGTGTGTGCGTCAG
Seq C2 exon
GATGATGTAGTGATGGGGACGCTGACGGTGCGTGAGAATCTGCGTTTCTCTGCTGCTTTACGCCTCCCGAAATCCATCAAACAGAGAGAAAAAGACGAGAAGGTGGAGAGACTGATCCAGGAGCTGGGCCTGAGCAAAGTGGCAGACTCACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100075:ENSDART00000159939:4
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(25.9=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(34.0=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:
TTTCTGGATGTTCTGGCGGC
R:
GTGAGTCTGCCACTTTGCTCA
Band lengths:
265-1005
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]