BtaINT0011052 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014903 | ABCA3
Description
Bos taurus ATP-binding cassette, sub-family A (ABC1), member 3 (ABCA3), mRNA. [Source:RefSeq mRNA;Acc:NM_001113746]
Coordinates
chr25:1819910-1820389:-
Coord C1 exon
chr25:1820273-1820389
Coord A exon
chr25:1820031-1820272
Coord C2 exon
chr25:1819910-1820030
Length
242 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CAGCTGCCCCTGCCGCGCAGGTG
3' ss Score
6.07
Exon sequences
Seq C1 exon
GAGTACATGCGTATGATGGGGCTCAGCAGCTGGCTGCTCTGGACTGCATGGTTCCTCCTTTTCTTCCTCCTCCTCCTCGTCGCCGTCTCCTTCATGACCCTGCTCTTCTGTGTCAAG
Seq A exon
GTGAGCGCGGCCCCAGAAGGGAGTCTGACATGAAAAGCAAGGCGTCCAGGGTGGGGGCTGGTGGGCAGAGACATCCGTGGCACCCCCAGGGAGACCCCCAAGACTCCGCCCTGGTGGGAGGGAGCACCGTGTGGCACCTCCTCCTGCCCGTCCCAGCTCCGATGGTGGAGACTGCCCCCACAGAGGGCACGGAGGTGGCCCTGTGTCCCTGTCCCCCGCCACCAGCTGCCCCTGCCGCGCAG
Seq C2 exon
GTGAAGAAGGACGTGGCGGTGCTGGCGCACAGCGACCCCACGCTGGTGCTGGTCTTCCTGGCCTGCTTTGCTGTCTCCTCCATCTCCTTCAGCTTCATGGTCAGCACCTTCTTCAGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014903:ENSBTAT00000019840:6
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:
PF126982=ABC2_membrane_3=FE(8.5=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(8.9=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:
GAGTACATGCGTATGATGGGGC
R:
TTGCTGAAGAAGGTGCTGACC
Band lengths:
236-478
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]