BtaINT0011224 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006896 | ABCA9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:HGNC Symbol;Acc:HGNC:39]
Coordinates
chr19:62117490-62117975:+
Coord C1 exon
chr19:62117490-62117665
Coord A exon
chr19:62117666-62117855
Coord C2 exon
chr19:62117856-62117975
Length
190 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAT
5' ss Score
7.25
3' ss Seq
GACTCAATGTCCTTTGTCAGGTC
3' ss Score
7.11
Exon sequences
Seq C1 exon
GGTCCGTCACCATCTACAATCACTCACTTTCAGAAGCGGCTGACCTAGAACACATCAGCAAGCTCACTGGCGTCTGTCCACAAGCCAACGTGCAATTTGGTTTCCTCACCGTGAGAGAAAACCTCAGGTTCTTTGCTAAGATAAAAGGGATTCAGCCACATGAAGTGGAGCAACAG
Seq A exon
GTAGATGCCTAAGCTAGCTGTCACAGCCGCGAGAATGGAAGTGCTTACCTAGAAAACCCTACATGCGTGTGTGTTGTTTCTACACAATTCATCCTCAAAAGGTCCACAAGGCCCTTTGCAATGAACGGCAGAGTGGGAGTTAGTGTCTTTAAGAGGAACGTCTAAGTGTGGACTCAATGTCCTTTGTCAG
Seq C2 exon
GTCCAACGGGTTTTACAGGATCTGGAGATGGGAAACATTCAAGACGTTCTTGCTCAAAATTTAAGCGGTGGACAAAAAAGGAAACTGACGTTTGGGACTGCCATTTTAGGAGATCCGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006896:ENSBTAT00000009067:13
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=FE(39.5=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(26.5=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:
ACACATCAGCAAGCTCACTGG
R:
CGCGGATCTCCTAAAATGGCA
Band lengths:
246-436
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development