BtaINT0010830 @ 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
chr8:96278222-96278852:-
Coord C1 exon
chr8:96278711-96278852
Coord A exon
chr8:96278357-96278710
Coord C2 exon
chr8:96278222-96278356
Length
354 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
CGCTTTTTTATCACTCTTAGGTT
3' ss Score
9.36
Exon sequences
Seq C1 exon
TATCTTATCAGACATCCATGAAGTCCATCAGAACATGGGCTATTGCCCTCAGTTTGATGCCATCACAGAGCTGCTGACTGGAAGAGAACACGTGGAGTTCTTTGCCCTTTTGAGAGGAGTCCCAGAGAAAGAAGTAGGCAAG
Seq A exon
GTACTGTGGGCACCGGAAAGCCAGCCTGCCTCCTTTGGCATCCTGACAGCCTGCCTTTTGGCTGTGGCCTTCACACATGGCCATTGGCTTCAGGCTGTTCATCCTTAAGGACGCAGCGACAGGAAGTGCTGGCTCTTTGCAGCTCCTTTCAAAGGGGGAAGTTGCGGCGGTGGGGTAGGTATGGGAGATCAGGCTTACTCTGGAGGGCAGAGAGGGAGTGCTGCTCCCTGTGCTGCAGGCACTGTCCAGGTCATGATTGTATAGAATCTGGTCCTGCTCAGTGAAAGAGTTCTCACACGCAAGTGTAAGAAAGCATGATAAAATTACCAAATGGCGCTTTTTTATCACTCTTAG
Seq C2 exon
GTTGGCGAGTGGGCGATTCGGAAACTGGGCCTTGTGAAGTATGGAGAAAAATATGCTGGGAACTACAGTGGAGGCAATAAGCGCAAGCTCTCAACAGCCATGGCTTTGATTGGTGGGCCTCCAGTGGTGTTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020661:ENSBTAT00000027538:45
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(32.4=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(30.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGACATCCATGAAGTCCATCA
R:
CAGAAACACCACTGGAGGCC
Band lengths:
270-624
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]