HsaEX0052297 @ hg19
Exon Skipping
Gene
ENSG00000108352 | RAPGEFL1
Description
Rap guanine nucleotide exchange factor (GEF)-like 1 [Source:HGNC Symbol;Acc:17428]
Coordinates
chr17:38334514-38337946:+
Coord C1 exon
chr17:38334514-38334633
Coord A exon
chr17:38337551-38337707
Coord C2 exon
chr17:38337868-38337946
Length
157 bp
Sequences
Splice sites
3' ss Seq
TGGGCTACTTCTTTTTTCAGGCA
3' ss Score
8.05
5' ss Seq
CATGTATGT
5' ss Score
5.71
Exon sequences
Seq C1 exon
GCGAGCCCTTGACTTCGCCGCCCTGGGCCCCTCTGGGCGCCCCCGAGCGGCCCGAGCATCTTCTGAACCGGGTTCTGGAGCGGCTTGCTGGAGGGGCTACCAGGGACAGCGCCGCCTCAG
Seq A exon
GCAGAACTCAACCTTGGTGTGTTATCTGACCAACTTCCCACATACGCTGAAGAGAAGTGCACATGGCCATCAAAGGCACGCGCCCCCCCCTTCCCTTCAGCTGCCTTGGCAGCTGCCGAACCCACCCTCGCAGTGGCTGCCCAGAACCTTTACACAT
Seq C2 exon
ATATCCTGCTGGATGACATTGTCCTTACCCATTCTCTCTTCCTCCCGACGGAGAAATTTCTGCAGGAGCTACACCAGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000108352-'2-4,'2-3,3-4
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
In the CDS, with uncertain impact
Show structural model
Features
Disorder rate (Iupred):
C1=0.877 A=0.667 C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
PF0061815=RasGEF_N=PU(4.9=60.0)
C2:
PF0061815=RasGEF_N=FE(42.6=100)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
GAGCCCTTGACTTCGCCG
R:
ACTGGTGTAGCTCCTGCAGAA
Band lengths:
196-353
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- 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)