BtaALTA0005278-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000012485 | C9orf114
Description
chromosome 9 open reading frame 114 [Source:HGNC Symbol;Acc:HGNC:26933]
Coordinates
chr11:99320544-99321832:-
Coord C1 exon
chr11:99321702-99321832
Coord A exon
chr11:99320614-99320616
Coord C2 exon
chr11:99320544-99320613
Length
3 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
TTTTTCTGGCTTTCTCCCAGGAG
3' ss Score
9.24
Exon sequences
Seq C1 exon
GGCTCCTGAACCCCTTGGACAGCCCTCACCACATGCGTCAAGATGAGGAATCTGAGTTCCGAGAGGGTGTTGTGGTGGACCGGCCCACCCGGCCTGGCCAGGGCTCCTTTGTCAACTGTGGCATGAAGAAG
Seq A exon
GAG
Seq C2 exon
GTGAAGATTGACAAGAACTTGGAGCCTGGACTTCGGGTGACAGTGCGGCTCAACCAGAACCAGCTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012485-10-7,10-6-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.432 A=NA C2=0.040
Domain overlap (PFAM):
C1:
PF0259812=Methyltrn_RNA_3=FE(14.7=100)
A:
NA
C2:
PF0259812=Methyltrn_RNA_3=FE(8.2=100)
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:
CCAGGGCTCCTTTGTCAACTG
R:
TGGGAGCTGGTTCTGGTTGAG
Band lengths:
103-106
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development