BtaINT0011034 @ 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
chr25:1812093-1812631:-
Coord C1 exon
chr25:1812477-1812631
Coord A exon
chr25:1812249-1812476
Coord C2 exon
chr25:1812093-1812248
Length
228 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTCCATCCCTGCTGTTTCAGCTG
3' ss Score
8.03
Exon sequences
Seq C1 exon
GTCTCTTCCCCCCGACCAGTGGACGAGCATACATCAGCGGGTACGAAGTCTCCCAGGACATGGATCAGATCCGGAAAAGCCTAGGCCTGTGCCCACAGCATGACGTCTTGTTTGACGACCTGACCGTTGCCGAGCACCTGTATTTCTACGCTCAG
Seq A exon
GTGAGCCGGCAGGGGACAGGGTGTGCGGGCTGCCGCGGTGGTCCCATCATCCGTGAGGCAGCCTCGGAGCCCTTAGCCTCCCAGAAAACCGAACCTGCCCCAGGGAGCCGTCAGCAGACTGTGGGGTGCAGGGTGGTCAGGGCATGAGGTCCAGCATGGGGAGGGACAGGGACAGCACCAAGGCTGGTGCCGCCTGGACGGGCCAGATCTCCATCCCTGCTGTTTCAG
Seq C2 exon
CTGAAAGGCTTGCCACGTCAGAAGTGCCCTGAGGAGGTCAAACGCATGCTGCACGTGCTCGGGCTGGAGGAGAAGCGGGATTCCCGGAGCAGGTTTCTGAGCGGCGGGATGCGGCGCAAGCTCTCCATCGGCATCGCCCTCATCGCGGGCTCCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014903:ENSBTAT00000019840:12
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(35.2=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(35.2=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:
GTGGACGAGCATACATCAGCG
R:
TTTGGAGCCCGCGATGAGG
Band lengths:
293-521
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]