BtaALTA0001354-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000006896 | ABCA9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:HGNC Symbol;Acc:HGNC:39]
Coordinates
chr19:62118696-62119668:+
Coord C1 exon
chr19:62118696-62118834
Coord A exon
chr19:62119578-62119581
Coord C2 exon
chr19:62119582-62119668
Length
4 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
ATTTCATTCTTCCAACTTAGATA
3' ss Score
7.9
Exon sequences
Seq C1 exon
GTTTTGCTGTTGGATGAGCCAACTGCGGGGTCAGACCCTCTTTCGAGACACCGGGTGTGGAACCTCCTGCGAGAGAGGAAGTCAGACCACGTGGTCCTCTTCAGCACCCCGTTCATGGATGAGGCTGACGTCCTGGCTG
Seq A exon
ATAG
Seq C2 exon
AAAGGTGTTTATGTCCAACGGAAGGCTGAAGTGTGCGGGCTCTTCTCTATTCCTGAAGAGGAAATGGGGCATCGGCTACCATCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006896-22-24,22-23-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PD(5.4=17.0)
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGTTCATGGATGAGGCTGAC
R:
CCGATGCCCCATTTCCTCTTC
Band lengths:
106-110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development