BtaINT0011046 @ 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
chr25:1798975-1801070:-
Coord C1 exon
chr25:1800876-1801070
Coord A exon
chr25:1799163-1800875
Coord C2 exon
chr25:1798975-1799162
Length
1713 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
CTGCTGTGCTCCAACCCCAGGTG
3' ss Score
8.75
Exon sequences
Seq C1 exon
GTGTATGAGCAGCGGGCGCCGCTCCTCGCTGTGGACAAGGTGTCCCTCGCGGTGCAGAAAGGGGAGTGCTTCGGCTTGCTGGGCTTCAACGGAGCCGGGAAAACCACGACTTTCAAGATGCTGACCGGGGAGGAGACCATCACCTCTGGGGACGCCTTTGTTGGGGGCTACAGCATCAGCTCTGACATCGGGAAG
Seq A exon
GTGGGTGCGGCCAGGGAGGCAGGGATGAGGCTGGCCTCTGGCTCGAGGCTCAGGGACAGCAGGACGAGGCAGTAGCCGCGGCCAGAGCTAAGCAAGTGGTGGAGAGAGGAGTGAGGCTGTATCAGAGCACCCGGGGCTGGAAGATACCAGGCACGGCAGGCAGGAAGGCTGAGACTGGGTCCCCCCCAACCCCGGACTAGTGACATCTCTGGACCTGGGCACAGAGCGGCACCCACAGAATTCTGTCCTCTCAAAAGGACTCTAGTCTGTGTGCACAGTGATGGCAATGGTGCCCTGGGCCATTCAAACCAAGAACCAAAAGCTGGATGAAAGGTTAACCTTAAACCTCATGGTTGAGATCATGGAAGAGCGAGAGGCTTAGTGACGACCCCCAGCTGGAGTCTGCAAGCAGGAGCCACCCCTGCACAGAGGCCAGTCTGGCCCCTGAGACTTGGGCGTGGGTTAAGGACCTTATTGTGTGTAGGGGGCAGAAACGAAGAGCCACCCCTCTGAGTTAGCATGAAGCAGGCCATCCTGCTCCCGGGGACTGTGTGAACAGTTCCACGTGTGCTGAGCATGGCAGCGGAAGGAGCAGAGAAAGGCCTGTGCCTGGGAGTGACAGCATCTACTGAACCGGCATCAGGGGCTCCCAGTCAGCCATGCCACAACCACAGCACGCAGAGCACCCTCTCTGCAGGAAGGCTTTCATCCTGGACCTCTGAGAACCCCTCACGTAGTATTTCAAGGCCTGAACAGCACACAAGAAAAGCAGACAGAGGAGACCCCAGGCTGTGGCTGGAGCCCACAGACACCAGGGCTCTGTAGGGGGTCAAGCCCACCACTTTGGATTTGCAGTTAGCAGACCCAGATTATAAAACAACCGTGTTTCCTTTGTTCAGAGAAATAAACAAGATTGAAAAGGCATGCAAGGGAGAGGGATCTATAAATGTGGTCCAGGAAACGCAGGCCAGGGTGAGGAGCCTGAGACACATTTATTCTGTGCTTCAGTTGGAAGGGAGAGAATAGGGAAGAGATAGTAACTGCCACGGTCACAGCCAAGAAGGTCTCCAAACCAGTTAAGACCAGATCCTGGAAGCCTGAGAACCCAGAGGAGGTTAAAGAAAAAGAAATCCCATCTCTGGAATCCACAGAACCCAGGCATGCTTGTGCCCACTAGCTGCCGAACGTGGCTGGAGCTGGAGGCCAGCCATGCGGCATTCTGGCTTTGCCGAATGTGGCCACTCACCCGAGACCAGCTGCCATGCCGTCTTCTTAGGCTACACCCCGCCCCAAAGGTGTCACCAACAAACATCTCTTAATAAAGGGAGAAAGGGAAGGTCCCAGCACACGTTAGGTGTTTGTTAAACATCCGATGAACTACAGAGTGGATATCTCTCAGCTGTAAAGCATTGCGTAGACATGGTCACTTTGTACAATCAATGCGTTCCTGTAGCTGTCCACCCCCCTGCTGCCCAGGGTAGACCAGGCTTTGGCCAGTCTCTAACCCCTGGTTTGGGGGCAGTCTGGGTCCCAGTGCTCCCAGCCCTCACTGAGCCAGGCAAGCCTCTCTAGTGTCCCCACCGAAGTGCCATTTGGCAAGTTTTGGCGGAGGGTAGCCGCCAGGGCCAGTGGCACCAGCGAGGGACCACCTTGGGGAGATCTCCTGAGAGAAGGCTTCTGACCTACCAACTCCCTGCTGTGCTCCAACCCCAG
Seq C2 exon
GTGCGGCAGCGAATCGGCTACTGTCCCCAGTTCGATGCCCTGCTGGACCACATGACAGGCCGGGAGACCCTGGTCATGTTCGCCCGGCTCCGGGGCATCCCCGAGCGCCACATTGGCGCATGCGTGGAGAACACGCTGCGGGGTCTGCTCCTGGAGCCGCACGCCAACAAGCTGGTCAGGATGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014903:ENSBTAT00000019840:25
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=PU(37.2=83.1)
A:
NA
C2:
PF0000522=ABC_tran=FE(42.8=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:
CTCGCTGTGGACAAGGTGTC
R:
ACATCCTGACCAGCTTGTTGG
Band lengths:
355-2068
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]