BtaINT0011245 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006896 | ABCA9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:HGNC Symbol;Acc:HGNC:39]
Coordinates
chr19:62147310-62148539:+
Coord C1 exon
chr19:62147310-62147470
Coord A exon
chr19:62147471-62148463
Coord C2 exon
chr19:62148464-62148539
Length
993 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGT
5' ss Score
9.73
3' ss Seq
ACTCCCCCTGCTTCCCTCAGGCT
3' ss Score
9.39
Exon sequences
Seq C1 exon
GTGCTGCTCGCAGGGGGCAGCGGAGGGGTGCCCCCGGGGTTCCTGGGGTACTGCCCCCAGGAGAGCGCGCTGTGGCCCGGCCTGACGGTGAGGGAGCACCTCGAGGTGTCGGCCGCTGTGAAAGGGCTGCAGAGGGCGGACGCCGCGGCTGCTATCACCAG
Seq A exon
GTGCGTTGCGGGGCATCACCTGCTCCCCACCTGGGCTGAGACACCTTCACACAGGATGAGGCGGGCTGATAGCTCCATACTTGTTGATCGTCTAGACCCCAGTTCAGTGTTTTTGCTCTCTTTAAGCCTGGAGAGAAAAAGGCCACGCGTTATTATTTCTTAACTGATGTATAGTTGACTTACAATACGGTGTTAGTTTCAGGTATACAACAAAGTGGCTCAGCCATATTTTTTTTCAGATTCTTTTCCATCATGGGCTATTACAAGATACTGAACACAGTCCCCTGTGTTATACAGTGAACCCTTGTTGCATAGCTATTTTACGTATAGTAGTTTGTATCTGTTAAACCCAAAGTCCTGATTTATCCCGCCCCTCACCCCTTTCCCCTTTGGTAACCGTAAGTTTGTTTCTCTAGCTCTGTGAGCCTATTTCTGTTTTGTATATGGAATCATTTGTATTATATTTTTAGATTCTACATATAAGTGACATTATATACTATTTGCCTTTGTCTGACTTACTTCACACTAATTTCTCTCGACCTATGTGCATTACTGAAAGTGACAATATTTCATTCTTTCTTATGGCTGAGTAATCTCCCATTGCTGTGTGCACCACACCTTCCTAACCCAGTTGAGCACTGATGGGCATTTGCGCTGTTTCCATGTCCTGGCTACTGTGAATAGAGCCGCATGTATGGTTTCAGATTGAGAGTTTTTGTCTTTTTTGGATGTCTGCCCTAGTGTGGGATTGCAGGATCTTTGCACGATCATATAGGATCATATACTCACTGTTCTCAGTACAGAAAGAAGGCACTGCAGATATGAGTCTGGCTGCCAAGAAGGGTTCATAAAACACCCTAGGTGGTTTCACTTTTAGGATCATTCTGAGCCTCATTTAAACTCTCTGCATCTGTTCTGACTTGCTGGTTCTCCCCCATGCATCTCCCTCCCTAAGCAGGGTGCTGTGGGTTTGACTCCCCCTGCTTCCCTCAG
Seq C2 exon
GCTGGCGGATGCCCTGAAGCTGCAGGACCAGATGGCGCTCCCCGCCAAGGCCTTACCCGAGGGGGCAAAGAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006896:ENSBTAT00000009067:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(37.6=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(17.7=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:
CGGGGTTCCTGGGGTACTG
R:
CTTTCTCTTTGCCCCCTCGG
Band lengths:
203-1196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development