BtaINT0011002 @ bosTau6
Intron Retention
Gene
ENSBTAG00000047254 | ABCA2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:HGNC Symbol;Acc:HGNC:32]
Coordinates
chr11:106216219-106216686:+
Coord C1 exon
chr11:106216219-106216399
Coord A exon
chr11:106216400-106216473
Coord C2 exon
chr11:106216474-106216686
Length
74 bp
Sequences
Splice sites
5' ss Seq
CATGTGTGT
5' ss Score
2.6
3' ss Seq
GACCTCACCTGTCCGCCCAGGTC
3' ss Score
6.67
Exon sequences
Seq C1 exon
AGGAGACACGGGGCATGGAAGAGGAACCCACCCACCTGCCGCTGGTAGTCTGCGTGGACAAGCTCACCAAGGTCTATAAGAACGACAAGAAGCTGGCTTTGAACAAGCTGAGCCTCAACCTCTATGAGAACCAGGTCGTGTCCTTCCTGGGCCACAACGGGGCTGGCAAGACCACCACCAT
Seq A exon
GTGTGTGCCGGGGGGTGGGTGGCAGGGAGGGCTCCCTGCAGGAGGTGGGGCCGTGACCTCACCTGTCCGCCCAG
Seq C2 exon
GTCTATCCTCACCGGCCTGTTCCCACCTACATCGGGCTCGGCCACCATCTACGGGCATGACATCCGCACGGAGATGGACGAGATCCGCAAGAACCTGGGCATGTGTCCCCAGCACAATGTGCTCTTCGACCGGCTCACGGTGGAGGAGCACCTCTGGTTCTACTCGAGGCTCAAGAGCATGGCCCAGGAGGAGATCCGCAAGGAGATGGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047254:ENSBTAT00000065373:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.120 A=NA C2=0.019
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(18.6=44.3)
A:
NA
C2:
PF0000522=ABC_tran=FE(49.0=100)
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:
TGAGAACCAGGTCGTGTCCTT
R:
ACATTGTGCTGGGGACACATG
Band lengths:
177-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development