HsaALTA0004015-1/2 @ hg19
Alternative 3'ss
Gene
ENSG00000204525 | HLA-C
Description
major histocompatibility complex, class I, C [Source:HGNC Symbol;Acc:4933]
Coordinates
chr6:31237272-31237862:-
Coord C1 exon
chr6:31237743-31237862
Coord A exon
NA
Coord C2 exon
chr6:31237272-31237302
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
AGGGCATTTTCTTCCCACAGGTG
3' ss Score
9.73
Exon sequences
Seq C1 exon
AGCCATCTTCCCAGCCCACCATCCCCATCATGGGCATCGTTGCTGGCCTGGCTGTCCTGGTTGTCCTAGCTGTCCTTGGAGCTGTGGTCACCGCTATGATGTGTAGGAGGAAGAGCTCAG
Seq A exon
NA
Seq C2 exon
GTGGAAAAGGAGGGAGCTGCTCTCAGGCTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204525-9-10,9-9-1/2
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=0.067
Domain overlap (PFAM):
C1:
PF126692=P12=PU(53.6=73.2),PF066236=MHC_I_C=PU(6.9=4.9)
A:
NA
C2:
PF126692=P12=FE(19.6=100),PF066236=MHC_I_C=FE(37.9=100)
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
GTTGCTGGCCTGGCTGTC
R:
TGAGAGCAGCTCCCTCCTTTT
Band lengths:
107-125
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)