HsaALTD0003044-2/2 @ hg19
Alternative 5'ss
Gene
ENSG00000206503 | HLA-A
Description
major histocompatibility complex, class I, A [Source:HGNC Symbol;Acc:4931]
Coordinates
chr6:29912279-29912868:+
Coord C1 exon
chr6:29912279-29912393
Coord A exon
chr6:29912394-29912411
Coord C2 exon
chr6:29912836-29912868
Length
18 bp
Sequences
Splice sites
5' ss Seq
AGGGTGGGG
5' ss Score
2.21
3' ss Seq
AGGACATTTTCTTCTCACAGATA
3' ss Score
7.81
Exon sequences
Seq C1 exon
CTGTCTTCCCAGCCCACCATCCCCATCGTGGGCATCATTGCTGGCCTGGTTCTCCTTGGAGCTGTGATCACTGGAGCTGTGGTCGCTGCCGTGATGTGGAGGAGGAAGAGCTCAG
Seq A exon
GTGGAGAAGGGGTGAAGG
Seq C2 exon
ATAGAAAAGGAGGGAGTTACACTCAGGCTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000206503-14-18,15-18-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.833
Domain overlap (PFAM):
C1:
PF066236=MHC_I_C=PU(6.9=5.0)
A:
NA
C2:
PF066236=MHC_I_C=FE(39.3=100)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCATTGCTGGCCTGGTTCT
R:
GCCTGAGTGTAACTCCCTCCT
Band lengths:
111-129
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)