HsaALTA0004029-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000204642 | HLA-F
Description
major histocompatibility complex, class I, F [Source:HGNC Symbol;Acc:4963]
Coordinates
chr6:29693224-29693820:+
Coord C1 exon
chr6:29693224-29693340
Coord A exon
chr6:29693770-29693787
Coord C2 exon
chr6:29693788-29693820
Length
18 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TCCTTTCTGGCCTCTCACAGGAC
3' ss Score
10.3
Exon sequences
Seq C1 exon
AGCAGTCTCCCCAGCCCACCATCCCCATCGTGGGCATCGTTGCTGGCCTTGTTGTCCTTGGAGCTGTGGTCACTGGAGCTGTGGTCGCTGCTGTGATGTGGAGGAAGAAGAGCTCAG
Seq A exon
GACATTTTCTTCCCATAG
Seq C2 exon
ATAGAAACAGAGGGAGCTACTCTCAGGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204642-14-28,14-27-2/2
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=0.010 A=NA C2=0.106
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
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:
CTGGCCTTGTTGTCCTTGGAG
R:
GCCTGAGAGTAGCTCCCTCTG
Band lengths:
103-121
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)