DreINT0024307 @ danRer10
Intron Retention
Gene
ENSDARG00000100075 | abcg2a
Description
ATP-binding cassette, sub-family G (WHITE), member 2a [Source:ZFIN;Acc:ZDB-GENE-050517-35]
Coordinates
chr23:46075710-46076332:+
Coord C1 exon
chr23:46075710-46075862
Coord A exon
chr23:46075863-46076174
Coord C2 exon
chr23:46076175-46076332
Length
312 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAAA
5' ss Score
5.16
3' ss Seq
ATGATTGGCTTTTTGTGAAGGTG
3' ss Score
4.73
Exon sequences
Seq C1 exon
GATGATGTAGTGATGGGGACGCTGACGGTGCGTGAGAATCTGCGTTTCTCTGCTGCTTTACGCCTCCCGAAATCCATCAAACAGAGAGAAAAAGACGAGAAGGTGGAGAGACTGATCCAGGAGCTGGGCCTGAGCAAAGTGGCAGACTCACGG
Seq A exon
GTAAAACACACACACACACACACACACACACACACACACACACACACACACACACACACACACATACACACACACACACACACACACTACTCACTCTTACTGTTTACAAATTCTCACTTAATGTTACAAATATTCGCTCATTATAGTGTTGGGTCTAATGAGTTGTGAGCTGTGCTGTGATTGGCTGCTTAGACCGAGCTGTGCTGTGATTGGCTGTTTGGACTAAGCTGTGCTGTGATTGGCTGTTTGGACTGAGCTGTGCTGTGATTGGCTGTTTGGACTGAGCTGTGCTATGATTGGCTTTTTGTGAAG
Seq C2 exon
GTGGGGACGCAGCTGATTCGTGGAGTTTCGGGAGGCGAGCGGAAGAGGACGAACATCGGTATGGAGCTGATTATCGATCCGCCGGTGCTGTTTCTGGATGAACCCACGACCGGTCTGGACGCTAGCACTGCTAACTCTGTGCTAATGCTGCTGAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100075:ENSDART00000159939:5
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=0.019
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(34.0=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(24.5=67.9)
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:
GATGATGTAGTGATGGGGACGC
R:
TCTTCAGCAGCATTAGCACAGA
Band lengths:
310-622
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]