BtaINT0011024 @ bosTau6
Intron Retention
Gene
ENSBTAG00000047254 | ABCA2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:HGNC Symbol;Acc:HGNC:32]
Coordinates
chr11:106210884-106211296:+
Coord C1 exon
chr11:106210884-106211011
Coord A exon
chr11:106211012-106211209
Coord C2 exon
chr11:106211210-106211296
Length
198 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CACGACCCCCTCACGCTCAGGTC
3' ss Score
5.54
Exon sequences
Seq C1 exon
GGTCCTCCTTCTCTCTGGACTCGGTGGCCAGGGACCCGCGGGAGCTGTGGCGCTTCCTGACGCAGAACCTGTCGCTGCCCGACAGCGCGGCCCGGGCTCTGCTGGCCGCCCAGGTGGACCTGCCTGAG
Seq A exon
GTGAGGGCCAGGAGCCTCAGTGGAGCGCCTGTGTCTGCTCCTGGGAGCCCCCTGCCCTGGTCCTCCCCCTGGCTTCCGTGGGGGTGCAGGGCTCCTGTGTCTGCTCCTGGGGGAGCCCTGGCCCTGGCCCCCCGCCGGCTCCCGTGGGGGTGCAGGGCTGGAGCCCCAGCAGCTGAGCCACGACCCCCTCACGCTCAG
Seq C2 exon
GTCTATCGCCTGCTTTTTGGCCCTTCGCCTGGCCTGGATGGGGGTTCAGGGCCCCCCAGGAATCAGCAGCCCCTGTTCCGGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047254:ENSBTAT00000065373:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.070 A=NA C2=0.621
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCCTTCTCTCTGGACTCGG
R:
CTCCATCCGGAACAGGGGC
Band lengths:
212-410
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development