BtaALTA0005280-1/3 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000012485 | C9orf114
Description
chromosome 9 open reading frame 114 [Source:HGNC Symbol;Acc:HGNC:26933]
Coordinates
chr11:99319470-99319866:-
Coord C1 exon
chr11:99319764-99319866
Coord A exon
NA
Coord C2 exon
chr11:99319470-99319586
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TGGTGTTTGGGGGCCTCCAGGGG
3' ss Score
4.63
Exon sequences
Seq C1 exon
GTGCTGTGTTTGCTGAGGCCCCCTTCCAGGACGGCTATGATCTGACCATCGGGACATCAGAGCGAGGCTCAGATGTGGCCTCTGCCCAGCTTCCCAACTTCAG
Seq A exon
NA
Seq C2 exon
GGGCTGGAAGCTGGAGTGGATGCCGACCCCAACCTGGAGGTGGCTGAGCCCAGCGTTCTCTTCGACCTGTACGTCAACACCTGCCCCAACCAGGGCAGCCGCACCATCCGCACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012485-13-13,13-12,13-11-1/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.086 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0259812=Methyltrn_RNA_3=FE(11.6=100)
A:
NA
C2:
PF0259812=Methyltrn_RNA_3=FE(17.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCTCAGATGTGGCCTCTG
R:
CGTACAGGTCGAAGAGAACGC
Band lengths:
112-143
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development