BtaINT0010995 @ bosTau6
Intron Retention
Gene
ENSBTAG00000047254 | ABCA2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:HGNC Symbol;Acc:HGNC:32]
Coordinates
chr11:106214443-106214798:+
Coord C1 exon
chr11:106214443-106214616
Coord A exon
chr11:106214617-106214695
Coord C2 exon
chr11:106214696-106214798
Length
79 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
CTTGCTCCTCCCACCCGCAGACA
3' ss Score
12.3
Exon sequences
Seq C1 exon
GTGTGATCTTCCAGACCCGCAAGGACGGTTCCTTGCCGCCCCACGTGCACTACAAGATCCGCCAGAATTCAAGCTTCACGGAGAAAACCAACGAGATCCGCCGGGCCTACTGGCGGCCGGGGCCCAACACCGGCGGCCGCTTCTACTTTCTATATGGCTTCGTTTGGATCCAGG
Seq A exon
GTGAGGGCCGACCCTGGGGCCGCGGGGGGCGGGGCGCAGCCTCCGCTGACCACCATCCTCTTGCTCCTCCCACCCGCAG
Seq C2 exon
ACATGATGGAGCGCGCCATCATCGACACCTTCGTGGGCCACGACGTGGTGGAGCCCGGCAACTACGTGCAGATGTTCCCCTACCCGTGCTACACGCGGGACGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047254:ENSBTAT00000065373:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(6.6=42.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAAACCAACGAGATCCGCC
R:
AACATCTGCACGTAGTTGCCG
Band lengths:
169-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development