HsaEX0053614 @ hg19
Exon Skipping
Gene
ENSG00000080345 | RIF1
Description
RAP1 interacting factor homolog (yeast) [Source:HGNC Symbol;Acc:23207]
Coordinates
chr2:152276704-152285436:+
Coord C1 exon
chr2:152276704-152276893
Coord A exon
chr2:152279464-152279556
Coord C2 exon
chr2:152285298-152285436
Length
93 bp
Sequences
Splice sites
3' ss Seq
TTAATTGCTTTTGTTTGCAGAAA
3' ss Score
9.42
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
Exon sequences
Seq C1 exon
GCTAATTGAACAAGCCCCAATTCAAATGGGAGAAGAGGCAGTGAGGTGGGCAAAACTGGTCATACCTTTAGTGGTTCATTCAGCACAAAAGGTACATTTGCGGGGAGCAACTGCTCTGGAGATGGGAATGCCATTATTGCTTCAGAAACAGCAAGAAATAGCATCTATTACGGAGCAGCTTATGACTACT
Seq A exon
AAATTAATCTCAGAACTTCAGAAGCTATTTATGAGTAAAAATGAGACTTACGTGTTAAAATTATGGCCTTTGTTTGTCAAACTACTTGGAAGG
Seq C2 exon
ACCTTGCATCGAAGTGGGAGTTTCATCAATTCTCTCTTGCAACTAGAAGAACTTGGATTTCGTAGTGGAGCACCCATGATTAAAAAGATAGCTTTTATTGCTTGGAAGAGTTTAATAGATAATTTTGCTTTAAATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000080345_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF122313=Rif1_N=FE(28.6=100),PF122313=Rif1_N=PU(2.8=4.7)
A:
PF122313=Rif1_N=FE(10.0=100)
C2:
PF122313=Rif1_N=PD(1.8=8.5),PF122313=Rif1_N=FE(43.0=100)
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGTGGGCAAAACTGGTCAT
R:
AACTCCCACTTCGATGCAAGG
Band lengths:
170-263
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)