BtaINT0011241 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006896 | ABCA9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:HGNC Symbol;Acc:HGNC:39]
Coordinates
chr19:62141947-62142846:+
Coord C1 exon
chr19:62141947-62142067
Coord A exon
chr19:62142068-62142728
Coord C2 exon
chr19:62142729-62142846
Length
661 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGAG
5' ss Score
4.86
3' ss Seq
GACTTTCCTTGCCTTTCCAGAAA
3' ss Score
10.56
Exon sequences
Seq C1 exon
AATTTCGCCAAGGAGCAGTGCTGTTTTTGCAAACCCAGAGAAACCCGAAGGGGAGGATGAAGATGTCCAGACGGAAAGAAGGAGAACAGCAGACGCCGTGGCCGCCCCGGACGCGGAGGAG
Seq A exon
GTAGAGCCGTGAAATCACACATAGGGCACTTGACTCTGTCCGGGCAGGGGGGCCAGTGCGCAGTCTGTCTTTTCCGAAAACACGTGAGGTTCTTTAGTCCTTACACATGGAGCCCATCGTTTGACTTCTCTGAGTATGCAGTGCCCACAAAGATGGGAGAACCGAGGAAACACACACACACTGACTGCTTCATGCCTTTTTCAGAGTCGTAGTTTTGGCAAATAAAGCTAATCATCACAAAACCAAAGCGAGACGTTAAAGCTGAGTACAGTTCACTGCAGTTCAGGGCAGAGAGTTCCTCTGAGGTGTGTGTGTCTTTGTGTGCCCGGATGCGTCTGTTTGTGTGTCTATGTGTGTGTTTGTGTGCCTGTGGGTGTGTGTACATGAACACACCTCTTCACAGACCTACTGGTTGGGTGGATGTCTCTATTCCAGTTTTCGGAGGAACAGCAAGCAGGAATCGTGTGCTGCAGTACAGATGTCTTTTCCCTGAAGGGATGTACAAGACTGGGGCAGTTTGCTGGAAAATGGCAGTTTCTAGGGGGGAGGGCTGGTCTGACTCATGGCATCTAGCAGGAGAGATCTGGACCCGGGGAGGAGGGGACACGTGCTCGTTTCACGGTGAGAATGAAGCTGCATCGGACTTTCCTTGCCTTTCCAG
Seq C2 exon
AAACCTGCCATTGTGGCCAGCTGTCTACGGAAGGAATATGCAGGCAGAAAGAAAAACTGTTTTGCCAAGAGGAAGAAAAAAGTAGCCACAAGAAACGTCTCTTTCTGCGTGAAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006896:ENSBTAT00000009067:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.610 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(7.1=25.0)
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:
AATTTCGCCAAGGAGCAGTGC
R:
TCACGCAGAAAGAGACGTTTCT
Band lengths:
233-894
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development