HsaALTA0004029-1/2 @ 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
NA
Coord C2 exon
chr6:29693788-29693820
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
AGGACATTTTCTTCCCATAGATA
3' ss Score
8.1
Exon sequences
Seq C1 exon
AGCAGTCTCCCCAGCCCACCATCCCCATCGTGGGCATCGTTGCTGGCCTTGTTGTCCTTGGAGCTGTGGTCACTGGAGCTGTGGTCGCTGCTGTGATGTGGAGGAAGAAGAGCTCAG
Seq A exon
NA
Seq C2 exon
ATAGAAACAGAGGGAGCTACTCTCAGGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204642-14-28,14-27-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (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 Skipping Isoforms:
NA
Associated events
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:
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
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)