BtaALTA0005283-1/3 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000023776 | C9orf116
Description
chromosome 9 open reading frame 116 [Source:HGNC Symbol;Acc:HGNC:28435]
Coordinates
chr11:106452557-106456953:+
Coord C1 exon
chr11:106452557-106452635
Coord A exon
NA
Coord C2 exon
chr11:106456853-106456953
Length
0 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGG
5' ss Score
10.19
3' ss Seq
AAAACCGTTTTCTCCGACAGAAC
3' ss Score
8.25
Exon sequences
Seq C1 exon
GACCAAGGAGCCCCCCTCAGTGTACAGGACCAGTAACCAAGCTTATGGTAGCAGAGCCCCCACTGTGCACGAGATGCCG
Seq A exon
NA
Seq C2 exon
AACGTATGTTCCAGACATCAGTCCCGCTTCCCTTGTGACCGCTCACTGCAGGAACCCTGGGAGGTGTTGGGACTGGAGAGACGAAATGGTTAGAGGCTGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023776-1-8,1-7,1-6-1/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.481 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF148921=DUF4490=FE(24.3=100)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
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:
CCCTCAGTGTACAGGACCAGT
R:
GCCTCTAACCATTTCGTCTCTCC
Band lengths:
163-298
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development