BtaALTA0024493-1/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000006828 | RAPGEF3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:HGNC Symbol;Acc:HGNC:16629]
Coordinates
chr5:32704084-32704520:+
Coord C1 exon
chr5:32704084-32704205
Coord A exon
NA
Coord C2 exon
chr5:32704375-32704520
Length
0 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
AACACGACTGGGCCTTCCAGGAC
3' ss Score
4.51
Exon sequences
Seq C1 exon
GCAGTGCTGCTCCGGCCGGGAGCTGGTAGATGGGATCCTGGCCCTGGGGCTGGGCGTCCACTCCCGGAGCCAAGCCGTGGGTATCTGCCAGGTGCTCCTGGATGAAGGCGCCCTCTGCCATG
Seq A exon
NA
Seq C2 exon
GACCGAGACACCCAGTTCTACCGTTTCCCGGGGCCGGAGCCAGAGCCTGTGGGTGTCCATGAGCTAGAGGAAGAGCTGGTGGAGGCTCTGGCCCTGTTGTCCCAGCGGGGGCCCGATGCCCTGCTCACGGTGGCACTTCGAAAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006828-6-6,6-5-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.105
Domain overlap (PFAM):
C1:
PF0061016=DEP=FE(57.7=100)
A:
NA
C2:
PF0061016=DEP=PD(22.5=28.1)
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:
GGTATCTGCCAGGTGCTCCT
R:
TCCTCTAGCTCATGGACACCC
Band lengths:
114-137
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development