BtaINT0011009 @ bosTau6
Intron Retention
Gene
ENSBTAG00000047254 | ABCA2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:HGNC Symbol;Acc:HGNC:32]
Coordinates
chr11:106218315-106218837:+
Coord C1 exon
chr11:106218315-106218551
Coord A exon
chr11:106218552-106218630
Coord C2 exon
chr11:106218631-106218837
Length
79 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
3' ss Seq
AGCTCCTGCCTCCTGTGCAGAGG
3' ss Score
6.38
Exon sequences
Seq C1 exon
ATGTGAAAGAGTCTAGGAAAGACGTGTTACCGGGGGCTGCGGACCCGGTATCGGCGGAAGGTCCTGCGGGCAACCTGGCGCGGTGCGCGGAGCTGGCCCAGTCGCAGGTGTCGCTGCAGTCTGCATCCTCGGTGGGCTCTGCCCGTGGTGACGAGGGGGCCGGCTACACCGATGTCTACAGCGACTACCGCCCTCTCTGTGACAACTTGCAGGACCCTGACAATGTCAGCTTGCAAG
Seq A exon
GTGGGGGCTGTTGGGTACTGCCGGGAGGGTCCCTGGAGGGTGGAGCGGGGCCCGTGCTCAGCTCCTGCCTCCTGTGCAG
Seq C2 exon
AGGCAGAGGCGGAGACCCTCGCGCGGGTTGGCCAGGGCAGCCGCAAGCTGGAGGGCTGGTGGCTGAAGGTGCGCCAGTTCCACGGGCTCCTGGTGAAGCGCTTCCACTGCGCCCGGCGCAACTCCAAGGCACTGTCCTCTCAGATCCTGCTCCCTGCCTTCTTCGTCTGCGTGGCTATGACCGTGGCGCTCTCCGTCCCAGAGATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047254:ENSBTAT00000065373:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.338 A=NA C2=0.057
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACAACTTGCAGGACCCTGAC
R:
AGAGGACAGTGCCTTGGAGTT
Band lengths:
177-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development