BtaINT0011226 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006896 | ABCA9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:HGNC Symbol;Acc:HGNC:39]
Coordinates
chr19:62118696-62119668:+
Coord C1 exon
chr19:62118696-62118834
Coord A exon
chr19:62118835-62119577
Coord C2 exon
chr19:62119578-62119668
Length
743 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
ATTTCATTCTTCCAACTTAGATA
3' ss Score
7.9
Exon sequences
Seq C1 exon
GTTTTGCTGTTGGATGAGCCAACTGCGGGGTCAGACCCTCTTTCGAGACACCGGGTGTGGAACCTCCTGCGAGAGAGGAAGTCAGACCACGTGGTCCTCTTCAGCACCCCGTTCATGGATGAGGCTGACGTCCTGGCTG
Seq A exon
GTGAGCCTTGGGTTTCCTTCGTGTATCTCAGTGACGACTTAGGGACCCAGATGGAACGCGTGTAGCGAAGCTCCGGGCCAGCTCCGAGGGTGTGGCTCCCTCGAGCCAGGGGGGTGGATGGTCCTCTGGCCGATCTGAGTGTCTTCATCTCCGAGGGCATTGTCCCAGCAAGGATTCTGATCCTATTGCAAAGCACCTCACCTGCTATAAAATACAAAGCATACTCCCCAAGATGTGTTATGATTTATCCTGTATGAAGGGGACTTCCCAGGTGGCTCGGCGGTAAAGAATCTGCCTGCATTGTAGAGACGCGAGAGAGGTGGGTTCAATCCCTGGGTCGGGAAGATCCCCTGGAGAAGGAAATGGCAACCCTCTCCAGTATTCTTGACCGGAGAATCCCCATGGACAGAGGATCCTGGCGGGCTACAGTCCATGGAGTCCCAAAGAGTTGGATACAACAGAGCATGCATGCACACATTCAGTGTATTCGGAATATCAGTTGACTTGAAACATCCTTTTAGTACATGACAATTTGTCTAAATATATTCAAGAATAAACTAACATATCACTTGATTTATCAGATGTCAAAGAACGTGGCTTACTTACGGCCAGAATTAGGATGTGCCTGTGTTAGCAAGTGGTGCTCCTAAAATACACTGTTTGTTCATGAATTCGTTTTTTTTTTTTAATAAATAGTGAAAAAACAACCTCTGAATACAATTTATTTCATTCTTCCAACTTAG
Seq C2 exon
ATAGAAAGGTGTTTATGTCCAACGGAAGGCTGAAGTGTGCGGGCTCTTCTCTATTCCTGAAGAGGAAATGGGGCATCGGCTACCATCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006896:ENSBTAT00000009067:15
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=PD(5.4=17.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTTGCTGTTGGATGAGCC
R:
CTTAGATGGTAGCCGATGCCC
Band lengths:
230-973
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development