BtaINT0010827 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020661 | ABCA1
Description
Bos taurus ATP-binding cassette, sub-family A (ABC1), member 1 (ABCA1), mRNA. [Source:RefSeq mRNA;Acc:NM_001024693]
Coordinates
chr8:96281960-96282931:-
Coord C1 exon
chr8:96282811-96282931
Coord A exon
chr8:96282023-96282810
Coord C2 exon
chr8:96281960-96282022
Length
788 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TTGCATTGTGCTGGTTGCAGGTA
3' ss Score
7.43
Exon sequences
Seq C1 exon
ACCTGTAAAGGCAAAGCTTCCTCCTCTGAATGATGAGGATGAAGATGTGAAGAGGGAAAGACAGAGAATTCTTGATGGTGGAGGACAGAATGACATCTTGGAAATCAAGGAGTTGACTAAG
Seq A exon
GTGAGACAGTGAAGACAGGCTACAACTTGCCTTCAATTTTTTCAGCTTTATATGTTAGAAACTAGCATTTTGCTGACTCACTTAATAAAAGGAGCATGCTTCCTAAAATGTGCATCTATACCAAGTTTCTGTCAATTTAATTTTACTTAAAATACACCATGGAGACTTCTCTAATTAAAGAAATCCTACTGAGAATAATTGTAAAGTGAATTCTCATTCTTGAGTATGTTTGTTCTTCATGCTTACATTTATGTGTTAGTTATTAAAACATCTAATATTGTATATCGAGTCAAAGCTGAAGTTGGGAGAATAAATGATTGATTTTGAATTTCAAAAAAGCTGGTAAATCCCCATTGATTAAAAGGAGGATCTATTTCCACCCTTTCTAGGTGCCATAACAACAACAATTCACTTTTTTGTAATATGTTCAATATTTGCAGTGTTTTGATAACAAATTTTTATCCCATAGAATTTAATTTTAAAAATATCTGCAATGTCTTTATATTAAATAAAAATTATGTAGATGTTAATGACAAATATATTTTTTAAAGTCTGATATTTGATTAAAAAAATACAAAGAAATTCATTTATATTTTGAGCATCAGGGTTATTCAAAAGCCAGTTGCCACAGAGACAGACCAAGGCTTTGGCACATCAAGTATCTGATTTAGTCTTATCAATGAGTTGAATTTCGTGGTGTGTTTAGGTCACAATTCCCTCTCCCACAGTTGCCTGGGCTAGCCATGAGTCACTGCAGCTCATGACTCTTTGCATTGTGCTGGTTGCAG
Seq C2 exon
GTATACAGAAGAAAGAGGAAACCTGCTGTTGACAGGATCTGCGTTGGCATTCCTCCTGGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020661:ENSBTAT00000027538:42
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.220 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(7.6=52.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTGTAAAGGCAAAGCTTCCT
R:
CTCACCAGGAGGAATGCCAAC
Band lengths:
184-972
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]