BtaALTA0024493-2/2 @ 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
chr5:32704352-32704374
Coord C2 exon
chr5:32704375-32704520
Length
23 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
CCTGGGCCTCTGCCCTGCAGTGA
3' ss Score
7.47
Exon sequences
Seq C1 exon
GCAGTGCTGCTCCGGCCGGGAGCTGGTAGATGGGATCCTGGCCCTGGGGCTGGGCGTCCACTCCCGGAGCCAAGCCGTGGGTATCTGCCAGGTGCTCCTGGATGAAGGCGCCCTCTGCCATG
Seq A exon
TGAAACACGACTGGGCCTTCCAG
Seq C2 exon
GACCGAGACACCCAGTTCTACCGTTTCCCGGGGCCGGAGCCAGAGCCTGTGGGTGTCCATGAGCTAGAGGAAGAGCTGGTGGAGGCTCTGGCCCTGTTGTCCCAGCGGGGGCCCGATGCCCTGCTCACGGTGGCACTTCGAAAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006828-6-6,6-5-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 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 Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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