BtaALTA0005289-1/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000019513 | C9orf50
Description
chromosome 9 open reading frame 50 [Source:HGNC Symbol;Acc:HGNC:23677]
Coordinates
chr11:100031342-100031781:-
Coord C1 exon
chr11:100031616-100031781
Coord A exon
NA
Coord C2 exon
chr11:100031342-100031462
Length
0 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGG
5' ss Score
3.69
3' ss Seq
TGGGCGCCTGTCCCCCTCAGGTC
3' ss Score
9.15
Exon sequences
Seq C1 exon
CCCGGCAGGGCATCTTCGAGAACAGGACAGCCAAGCCCCGGTCAACAGCATCGGATCGGGTGTTCGGGAGTGTCGGGAGATGGCTGGAGAGCTTGCCCAAAGCCTTGTACCCGAGGGCCAAGGAGGAGACCGCGGCCAGCCCCTTCAGCTGGGACTTCCCTGGCCT
Seq A exon
NA
Seq C2 exon
GTCCACCCTGGAGCCGAATGGCCACCTCCCTGAGGACACTTCCATGAGCAGCAGCCTGCCCTTCATCCCCAGGGCCACCGCCCAGAGGCAGCGGGGGGACCTCAAAGCCCTCCTGGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019513-13-19,13-18-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.113 A=NA C2=0.407
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
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:
CAAAGCCTTGTACCCGAGGG
R:
GCTCATGGAAGTGTCCTCAGG
Band lengths:
118-142
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development