BtaINT0011243 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006896 | ABCA9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:HGNC Symbol;Acc:HGNC:39]
Coordinates
chr19:62142729-62143602:+
Coord C1 exon
chr19:62142729-62142846
Coord A exon
chr19:62142847-62143510
Coord C2 exon
chr19:62143511-62143602
Length
664 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
AGTGTACCTGTTTCTTTCAGGGG
3' ss Score
8.05
Exon sequences
Seq C1 exon
AAACCTGCCATTGTGGCCAGCTGTCTACGGAAGGAATATGCAGGCAGAAAGAAAAACTGTTTTGCCAAGAGGAAGAAAAAAGTAGCCACAAGAAACGTCTCTTTCTGCGTGAAAAAAG
Seq A exon
GTAGGAACCAGTCGTTCTGCTGGCAAAGCCGTCTTGACCCGTGACTGTGAGGTCTCCTGAAGGGCCTGGGAGGGTCTGAATCCGGGACTGTCTGCAGATGAACCCGGAGGGCAGCCAGCCCTCCTCCACAGGCTACGGCCGAGCCAGCCTGTGGAAAATCTCAGCTATAATTACAATGGTGTTTCCTTGCATAGGAAGACAGTTCTGTTCCATTCAGACAGACACACAGAAAAAAGCAACGATGAGAACAATGACCAAAAAGGAGGCGGTCCTTCTGTTAAGAAGGCTGGGCTTATTTTTTAAGTAATATAATTAATTTCACAACAGGGTTTCGTCCCAGGAAGGAACCCCCTGGGGTACCGCAGTGCATCCATCCTCACAAATAGCATGTTCTGCAGCGTGTTGGTTAAATGCAAAATGCGCTTCAGATTCCAGCTCAACCTCAGATTGGCTGCATGACCCTGGTCATTTTATTCTCAATTCTCTTTGCATCTCCATTTCCTTGCCTGCAAAATGAAGCTAGTGACAGCACTCAGGTGTGTGTGCGAAGAATAAGTGAAATAATGACTATGGTTTGACACATGGTGAGCCATGAAAGAGCATTGGTGTTACTTTTATTGTAACAATTTGCAGGGATAATTCTGAGTGTACCTGTTTCTTTCAG
Seq C2 exon
GGGAAGTCATAGGGCTCTTGGGACACAACGGAGCTGGTAAAAGCACAACCATCAAGATGATAACTGGAGACACAAGACCGACCGCAGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006896:ENSBTAT00000009067:30
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=0.226
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(7.1=25.0)
A:
NA
C2:
PF0000522=ABC_tran=FE(21.3=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:
CCATTGTGGCCAGCTGTCTAC
R:
CTGCGGTCGGTCTTGTGTC
Band lengths:
198-862
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development