HsaEX0053613 @ hg19
Exon Skipping
Gene
ENSG00000080345 | RIF1
Description
RAP1 interacting factor homolog (yeast) [Source:HGNC Symbol;Acc:23207]
Coordinates
chr2:152266397-152267852:+
Coord C1 exon
chr2:152266397-152266547
Coord A exon
chr2:152266928-152267041
Coord C2 exon
chr2:152267774-152267852
Length
114 bp
Sequences
Splice sites
3' ss Seq
TCTTCCGGTTCGGGCCTCAGGGT
3' ss Score
7.59
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
Exon sequences
Seq C1 exon
CGCACTCCTGGGCCCGCCCAGCCGCCATCTTGGTCTAGGAGGGAGCGCGCCGCACGCGTGAGTAAACAGCCGGAGCTGGGAAAGTCGAGCTCTGGCAGCGTCTGGGTGCTGAGGGGCAGAGGCGGAGAGAACCCTGTCCTGATCTTCCTAG
Seq A exon
GGTGGCCGACATGACGGCCAGGGGTCAGAGCCCCCTCGCGCCGCTGTTGGAGACTTTGGAAGACCCTTCTGCCTCCCATGGAGGGCAGACTGACGCTTACCTGACTCTGACCAG
Seq C2 exon
TCGTATGACTGGAGAAGAAGGAAAAGAAGTAATTACAGAAATTGAGAAAAAACTTCCTCGGCTGTACAAAGTTTTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000080345_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. ATG (>10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=0.481 A=0.879 C2=0.173
Domain overlap (PFAM):
C1:
PF122313=Rif1_N=PU(4.7=65.4)
A:
PF032249=V-ATPase_H_N=PU(23.1=94.3),PF122313=Rif1_N=PU(8.2=51.4)
C2:
PF032249=V-ATPase_H_N=FE(30.2=100),PF122313=Rif1_N=FE(36.6=100),PF053776=FlaC_arch=PU(48.5=59.3)
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGCCGCCATCTTGGTCTAG
R:
TAAAACTTTGTACAGCCGAGGAAGT
Band lengths:
210-324
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)