BtaINT0011044 @ 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
chr25:1801192-1802007:-
Coord C1 exon
chr25:1801835-1802007
Coord A exon
chr25:1801321-1801834
Coord C2 exon
chr25:1801192-1801320
Length
514 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
GCTGTTTTCCAAACAACTAGACA
3' ss Score
2.5
Exon sequences
Seq C1 exon
ACATCCAGTACCAAGAGAACTTCTACGCGTGGAGCACCCCGGGGGTCGGCAGGTTCGTGACCTCCATGGCCGCCTCAGGGTTTGCCTACCTCACCCTGCTCTTCCTCGTGGAGGCCGACCTGCTATGGAGGCTGAAGACCTGCCTGTGTGCCTTCCAGAGGAGGCGGGCACTG
Seq A exon
GTGAGTGGCCCGTTGGGCCTCCAGCCGCTCTGCTGGGGGGCACCCTGCCACCGAGGTCGGCCTTCCTTGGGGACACTGCGCAGGGAGTCCACCGGCAGTGCTCACAGCGTCCCCTGGGGCTCTCTGAAGCCATGGGTCGAGGGAGCCTGGGGCCTCGGGGATCTCAGTCTCCCCGGAGACCTGGGGGCCCCGGCGCCCTCGTGTTTGTCACATACATTTCTTCCCCAAACAAACAAAACCTGCCAAGACATCACTTGCAGGACAGGTGGCCCCAGGGCTAATGGGGCAAAGACACTAGGCTTTTCTAAGGAAAGGAGTGTGTGTTTCCTCGGGGCCAGTGTCAGCCCTGATGGCCGCCCAGCTCTCCTGGGAGAGAGTTGGGAGACCTGAGTTGGCCCGCGTGGGGCTGAAATGGGGTGAGCGGCCTGGGAGACCTTAGTTAGTTAGCTCTTCCTCCCACGGAAACGGACCCCTCGGGGGAGCTCACCCCGGCGGCTGTTTTCCAAACAACTAG
Seq C2 exon
ACAGAAGTGTACACCCGGACGGCGGCGCTCCCTGAAGACCAGGACGTGATGGACGAAAGGAACCGCATCCTGTCCCCCAGCCTGGACTCCCTGCTGGACACACCTCTGATCATCAAGGAGCTCTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014903:ENSBTAT00000019840:23
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=PD(8.7=60.3)
A:
NA
C2:
NO
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:
CCAGTACCAAGAGAACTTCTACGC
R:
GGAGAGCTCCTTGATGATCAGA
Band lengths:
295-809
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]