BtaALTA0024499-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000015539 | RAPGEF5
Description
Rap guanine nucleotide exchange factor (GEF) 5 [Source:HGNC Symbol;Acc:HGNC:16862]
Coordinates
chr4:31085160-31117829:-
Coord C1 exon
chr4:31117704-31117829
Coord A exon
chr4:31085276-31085278
Coord C2 exon
chr4:31085160-31085275
Length
3 bp
Sequences
Splice sites
5' ss Seq
CACGTAAGC
5' ss Score
6.58
3' ss Seq
ACTCCTGTCGGCAATTAAAGCAG
3' ss Score
0.68
Exon sequences
Seq C1 exon
GCCGGCATGATGTGCAAACTTCAGGAGAGAGATGATATCGGGCGAATTGAACTGGTCCAGAAGCTGGCAAGAGAAAGCTGTCAGTTTTTGCAGACGGACAAAAAAGAACAGGAGAAGTCTGAACAC
Seq A exon
CAG
Seq C2 exon
GATGATGAAGTGACGACGGTTGAGGTGAAAGAGCAGGACCAGAATGTCCTGGTGCTGAAGAAAGTGCAGAGCTGCGGCCCAGCCCCGCAGGCGGGGAGCGCCGAGAGCGATTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015539-11-20,11-19-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.381 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion 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:
AGCTGGCAAGAGAAAGCTGTC
R:
TGGTCCTGCTCTTTCACCTCA
Band lengths:
106-109
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development