HsaEX6046247 @ hg19
Exon Skipping
Gene
ENSG00000204525 | HLA-C
Description
major histocompatibility complex, class I, C [Source:HGNC Symbol;Acc:4933]
Coordinates
chr6:31237115-31237862:-
Coord C1 exon
chr6:31237743-31237862
Coord A exon
chr6:31237270-31237302
Coord C2 exon
chr6:31237115-31237162
Length
33 bp
Sequences
Splice sites
3' ss Seq
AGGGCATTTTCTTCCCACAGGTG
3' ss Score
9.73
5' ss Seq
CGTGTAAGT
5' ss Score
8.58
Exon sequences
Seq C1 exon
AGCCATCTTCCCAGCCCACCATCCCCATCATGGGCATCGTTGCTGGCCTGGCTGTCCTGGTTGTCCTAGCTGTCCTTGGAGCTGTGGTCACCGCTATGATGTGTAGGAGGAAGAGCTCAG
Seq A exon
GTGGAAAAGGAGGGAGCTGCTCTCAGGCTGCGT
Seq C2 exon
GCAGCAACAGTGCCCAGGGCTCTGATGAGTCTCTCATCACTTGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204525-'9-11,'9-10,12-11=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.074 C2=0.000
Domain overlap (PFAM):
C1:
PF126692=P12=PU(53.6=73.2),PF066236=MHC_I_C=PU(6.9=4.9)
A:
PF126692=P12=FE(19.6=100),PF066236=MHC_I_C=FE(37.9=100)
C2:
PF126692=P12=PD(25.0=82.4),PF066236=MHC_I_C=PD(51.7=88.2)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
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:
AGAGACTCATCAGAGCCCTGG
Band lengths:
116-149
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)