BtaINT0011233 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006896 | ABCA9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:HGNC Symbol;Acc:HGNC:39]
Coordinates
chr19:62129984-62130906:+
Coord C1 exon
chr19:62129984-62130117
Coord A exon
chr19:62130118-62130768
Coord C2 exon
chr19:62130769-62130906
Length
651 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGC
5' ss Score
9.12
3' ss Seq
GCATATTTGCTATGCTTTAGGAT
3' ss Score
7.39
Exon sequences
Seq C1 exon
GGTCACGCATTGATGACTTCATACATTCACTGAGGCGCCAAAACATCGATTTAGAAGTGGACGCCCTTGGGACAAGAAATGGCCCCAGCGAGCCATCATACAACGGGGCCATCACTGTGACAGGCAACGACGAG
Seq A exon
GTATGCCGGGCTCCGACGCCCGTCACGTCAAAGATGGGCAGGAACGTGCGGTTTGAACAACGCACCCCAACTGACGCAAGCAGATGGGATAGTTCTCATTTTTAGAGGTTAATTCATTGTGCACATTCTTTATTTGTAAACTGAACGCATCACAAACAAAGCCTACTGCTGTGCTTAAGTGAAGGTGCGTTATGGAGCTGTATAGTGAGTGTGTAAAGTGAAAGTCGCTCTGCCGTGTCCAGCAGTTTTGAACCTACATGAAATTCTCCAGGCCAGAATACTGGAGTGGGTAGCCTTTCCCTTCTCCGGGATCCTCCCAACCCAGGGATGGAACCCAGGTCTCCCGCATTGCAGGCAGATTCTTTACCAGCTGAGCCACAAGTGTTGCGGCTAAAAATCGCGTGATGTATTTTGTTTTAGTTTAGGCATAAACAGTCACACAGCTAATGCTGTTGCAGCTGGTACAGGTCAAAATGCTGAGCTCCTTGCCGTATGCTGGGAATTAGTTGAATAATATGAGTCATGCTTCACGACACTCAGGCTTTAGCCTTCCTGTGTTGTCCGTCATTTGAAAGCTTTTCTACCATGTACTTTCATTAAATGTTGTATTTGCTTGCTGAGGACTTAGAATGCATATTTGCTATGCTTTAG
Seq C2 exon
GATCCCAGATTTTCTATAGCATGTAACACCAAAAGGCTGAATTGCTTTCCTGTACTCATGGACATCATTAGCAATGGGCTACTTGGAATGCTTAATTCTTCAGAACACATTCAGACCGACAGAAGCACGTATTTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006896:ENSBTAT00000009067:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.222 A=NA C2=0.065
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PU(11.2=71.1)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(15.7=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:
GGTCACGCATTGATGACTTCA
R:
TCAAAATACGTGCTTCTGTCGGT
Band lengths:
271-922
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development