HsaALTA0006996-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000107263 | RAPGEF1
Description
Rap guanine nucleotide exchange factor (GEF) 1 [Source:HGNC Symbol;Acc:4568]
Coordinates
chr9:134494438-134497385:-
Coord C1 exon
chr9:134497183-134497385
Coord A exon
chr9:134494594-134494596
Coord C2 exon
chr9:134494438-134494593
Length
3 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CTCTCCTCCCCTCTGTCCAGCAG
3' ss Score
8.03
Exon sequences
Seq C1 exon
TGCTGGCCTACATGCAGTTGCTGGAGGACTACTCGGAGCCGCAGCCCTCTATGTTCTACCAGACGCCACAGAACGAGCACATCTACCAGCAGAAGAACAAGCTCCTCATGGAGGTATACGGCTTCAGCGACTCCTTCAGTGGGGTGGACTCCGTGCAGGAGCTGGCCCCGCCGCCCGCCCTACCCCCCAAGCAGCGGCAGCTG
Seq A exon
CAG
Seq C2 exon
GCCTCCTGTGCTGCTTCTTCCTTCTCCTCTGTCTCCCACTGTGTCCAGCAAACTAAAGTGGCCTTCACCCCCGAGGACGGCAGTGCCGCTCAGGGCCTCAGTGTGTCCGTCTCTAACTCCTTTCTCAGCCGGCACGGCAGCTTGCCCGTGCCCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107263-18-21,18-20-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.594 A=NA C2=0.302
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTCAGCGACTCCTTCAGTG
R:
AAGGAAGAAGCAGCACAGGAG
Band lengths:
106-109
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)