BtaINT0011025 @ bosTau6
Intron Retention
Gene
ENSBTAG00000047254 | ABCA2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:HGNC Symbol;Acc:HGNC:32]
Coordinates
chr11:106222521-106222883:+
Coord C1 exon
chr11:106222521-106222662
Coord A exon
chr11:106222663-106222739
Coord C2 exon
chr11:106222740-106222883
Length
77 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
GACGTTCCCGTCACTCCCAGGTG
3' ss Score
9.47
Exon sequences
Seq C1 exon
CGTGCTCAAGGAGCTACTCCAGGTGCAGCAGAGCCTGGGCTACTGCCCGCAGTTCGACGCCCTGTTCGACGAGCTCACGGCCCGGGAGCATCTGCAGCTGTACACAAGGCTCCGGGGCATCCCCTGGAAGGACGAGGCGCGG
Seq A exon
GTGAGGGTTGCCCGGCGGGGGAGGCGGCCGGCGTGGGGGTGTGGAGGGGGGGTCCCTGACGTTCCCGTCACTCCCAG
Seq C2 exon
GTGGTGAAGTGGGCCTTGGAGAAGCTGGAGCTGACCAAGTATGCCGACAAGCCCGCCGGCACCTACAGCGGAGGGAACAAGCGGAAGCTGTCAACAGCCATTGCCCTCATCGGGTACCCAGCCTTCATCTTTCTGGTGAGCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047254:ENSBTAT00000065373:40
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(33.3=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(31.9=93.8)
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:
GAGCATCTGCAGCTGTACACA
R:
GATGAGGGCAATGGCTGTTGA
Band lengths:
168-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development