BtaALTD0003985-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000019513 | C9orf50
Description
chromosome 9 open reading frame 50 [Source:HGNC Symbol;Acc:HGNC:23677]
Coordinates
chr11:100030767-100031462:-
Coord C1 exon
chr11:100031342-100031462
Coord A exon
chr11:100031306-100031341
Coord C2 exon
chr11:100030767-100030989
Length
36 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
GGCCCTCCTTCTTGCTCTAGGAG
3' ss Score
10.37
Exon sequences
Seq C1 exon
GTCCACCCTGGAGCCGAATGGCCACCTCCCTGAGGACACTTCCATGAGCAGCAGCCTGCCCTTCATCCCCAGGGCCACCGCCCAGAGGCAGCGGGGGGACCTCAAAGCCCTCCTGGAGCAG
Seq A exon
GTGGGCAAATCGTCCTGTTCCTGGAGCCAGAAGCTG
Seq C2 exon
GAGTCCTTCCTGCCCAGCTTGGTGCTGCACACGATCCTGAAAAGAGGCCGCCCTAAGGGGTACCAGCTCCTCCTGCCTTCAGCATCGCATCGCACCCAGAGGTGAATGGCCACTGGTGTCCAAGCCCAGCCATGGACATGGGTGAGGGGTGAAGAGAGGCCTTCCCTAACCCACAAATAAAAGCACATCCCAGGTGGCTGGTATCTGCTGCCGGGTCTCACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019513-14-21,15-21-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.407 A=NA C2=0.235
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
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:
ACACTTCCATGAGCAGCAGC
R:
TTTCAGGATCGTGTGCAGCAC
Band lengths:
128-164
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development