HsaALTA1055966-1/2 @ hg38
Alternative 3'ss
Gene
ENSG00000204525 | HLA-C
Description
major histocompatibility complex, class I, C [Source:HGNC Symbol;Acc:HGNC:4933]
Coordinates
chr6:31271829-31272086:-
Coord C1 exon
chr6:31271999-31272086
Coord A exon
NA
Coord C2 exon
chr6:31271829-31271868
Length
0 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
CAGCCCCTCCTCGCCCCCAGGCT
3' ss Score
8.15
Exon sequences
Seq C1 exon
TCCCCAGAGGCCGAGATGCGGGTCATGGCGCCCCGAGCCCTCCTCCTGCTGCTCTCGGGAGGCCTGGCCCTGACCGAGACCTGGGCCT
Seq A exon
NA
Seq C2 exon
GCTCCCACTCCATGAGGTATTTCGACACCGCCGTGTCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204525-0-1,0-0-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.258
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(0.1=0.0)
A:
NA
C2:
PF0012913=MHC_I=PU(50.3=98.9)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
GAGATGCGGGTCATGGCG
R:
GGCGGTGTCGAAATACCTCAT
Band lengths:
108-125
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains