BtaINT0010804 @ 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
chr8:96308945-96309443:-
Coord C1 exon
chr8:96309301-96309443
Coord A exon
chr8:96309083-96309300
Coord C2 exon
chr8:96308945-96309082
Length
218 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAG
5' ss Score
6.66
3' ss Seq
CCTGTTTGTTCTCGCCGTAGGTG
3' ss Score
10.89
Exon sequences
Seq C1 exon
GCTGACTGTCGAGGAGCACATTTGGTTCTATGCCCGCCTGAAAGGGCTCTCCGAGAAGCATGTGAAAGCTGAGATGGAGCAGATGGCCTTGGATGTTGGGTTGCCGCCCAGCAAACTGAAAAGCAAAACAAGTCAGCTGTCAG
Seq A exon
GTGAAGCCCAGAGATGCCTTCCTCCTCCACCTCCCCTTCTACACACATATACACACACACGAAATATGGCTGCCCTAGGGTCCCCTGCTTCGAGGGAGGGGAAGGGTGGGTCAGAAACATGTTCCGGACTTGTCCCCAGGGGGGTGCCTCCACTTGTCTCTTGCCCCCTCTGCCGTCATTCACTGGGCTGTTCTGGGGCCTGTTTGTTCTCGCCGTAG
Seq C2 exon
GTGGAATGCAGAGAAAGCTGTCTGTGGCCTTGGCCTTTGTTGGGGGATCCAAGGTTGTCATTCTGGATGAGCCCACAGCCGGTGTGGACCCTTACTCCCGCAGGGGGATATGGGAGCTGCTGCTGAAGTACCGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020661:ENSBTAT00000027538:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.041 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(32.9=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(17.8=55.3)
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:
CTGTCGAGGAGCACATTTGGT
R:
CTTGTCGGTACTTCAGCAGCA
Band lengths:
276-494
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]