BtaINT0011038 @ 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
chr25:1805149-1806051:-
Coord C1 exon
chr25:1805748-1806051
Coord A exon
chr25:1805423-1805747
Coord C2 exon
chr25:1805149-1805422
Length
325 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
CCCCTGCCGCCACCACACAGGTG
3' ss Score
7.56
Exon sequences
Seq C1 exon
CTGGCCCTCCACTGCCAGCAGTTCTGGGCCATGTTCCTGAAGAAGGCCACCTACAGCTGGCGCGAGTGGAAGGTGGCGGCGGCCCAGGTCCTGGTACCCGTGACGTGCCTCACCCTGGCCCTCCTGGCCATCAACTACTCCTCCGAGATCTTCGACGACCCCCTCCTGAAGCTGACCCTGGGCGAGTACGGCCACACCGTCGTGCCCTTCTCGGTCCCCGGGACCTCTCGGCTGGATCAGCAGCTGTCGGAGCATCTGAAAGACATGCTGCAGGCCGAGGGCCAGGAGCCTCGAGAGGTGCTGG
Seq A exon
GTAAGGGGCATCTCAGGGGAGTGTCCTGGGGGGCTTGGGGGCGTGGCTTGTGCTGGCAGAGGCCCCTTCTCACCCATGTGGAGGTGCAGAAGGAAGAGCTTGTGGCTATGGGGGTGCCCCCCAGGCCTGCAGCCTTGGGTCCTGTGGCTCCCACCCCGTGGCCCCACAGCCCCGGACAGCGTGTGGGTGGAAGGTGATGTGTCCTTTCTATGGTTCCTGCGGCCCTTCAGGACAGGCACTCAGAGCGGGGCCTTGGCAGGCTGCCGGCCTTGAGCCAGTCATCCACGCCACTGACCCTGCCGTTGCCCCTGCCGCCACCACACAG
Seq C2 exon
GTGACCTGGAGGAGTTCCTGATTTTCAGGGCCTCAGTGGAGGGGGGCGGCTTCAACGAGCGGTGCCTGGTGGCAGCGTCCTTCAGAGACACGGGCGAGCGCACGGTCATCACTGCCCTGTTCAACAACCAAGCGTACCACTCCCCAGCCACTGTGCTGGCCGTCGTGGACAACCTCCTGTTCAAGCTGCTGTGTGGCCCCCGGGCCTCCATCACGGTGTCCAACTTCCCCCAGCCCCGGAGCGCCCTACAGGCTGCCAAGGATCAGTTCAATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014903:ENSBTAT00000019840:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.010 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PU(19.7=77.5)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(22.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGATCTTCGACGACCCCCTC
R:
CACACAGCAGCTTGAACAGGA
Band lengths:
355-680
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]