BtaALTA0024498-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000015539 | RAPGEF5
Description
Rap guanine nucleotide exchange factor (GEF) 5 [Source:HGNC Symbol;Acc:HGNC:16862]
Coordinates
chr4:31219752-31221567:-
Coord C1 exon
chr4:31221517-31221567
Coord A exon
chr4:31219859-31219883
Coord C2 exon
chr4:31219752-31219858
Length
25 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
TTGTTGTTCTGAATTCTCAGTGA
3' ss Score
6.47
Exon sequences
Seq C1 exon
ACTCTATCAAGAAGAATTTCCAATCCATACCTCGAACATACTCCATCCCAG
Seq A exon
TGAATCTTTTGTCTTTTCTATGTAG
Seq C2 exon
ATTTATGGGGAGAATTCTTCTTGTGCAGGAAGAGCATTGCGGAATATTATCATCGTTCAGGCAGCTGACCTGATAAAGGACAGAGCGAACCTCAAGGGGTTTTATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015539-1-2,1-1-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0061016=DEP=PU(17.4=33.3)
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:
ACCTCGAACATACTCCATCCCA
R:
AAAACCCCTTGAGGTTCGCTC
Band lengths:
126-151
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development