HsaEX0030114 @ hg19
Exon Skipping
Gene
ENSG00000204642 | HLA-F
Description
major histocompatibility complex, class I, F [Source:HGNC Symbol;Acc:4963]
Coordinates
chr6:29693224-29694303:+
Coord C1 exon
chr6:29693224-29693340
Coord A exon
chr6:29693788-29693820
Coord C2 exon
chr6:29694180-29694303
Length
33 bp
Sequences
Splice sites
3' ss Seq
AGGACATTTTCTTCCCATAGATA
3' ss Score
8.1
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
Exon sequences
Seq C1 exon
AGCAGTCTCCCCAGCCCACCATCCCCATCGTGGGCATCGTTGCTGGCCTTGTTGTCCTTGGAGCTGTGGTCACTGGAGCTGTGGTCGCTGCTGTGATGTGGAGGAAGAAGAGCTCAG
Seq A exon
ATAGAAACAGAGGGAGCTACTCTCAGGCTGCAG
Seq C2 exon
TGTGAGACAGCTTCCTTGTGTGGGACTGAGAAGCAAGATATCAATGTAGCAGAATTGCACTTGTGCCTCACGAACATACATAAATTTTAAAAATAAAGAATAAAAATATATCTTTTTATAGATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204642-'14-29,'14-28,15-29
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.010 A=0.126 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
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:
TTGCTGGCCTTGTTGTCCTTG
R:
GCTTCTCAGTCCCACACAAGG
Band lengths:
112-145
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)