HsaALTA1058843-2/4 @ hg38
Alternative 3'ss
Gene
ENSG00000234745 | HLA-B
Description
major histocompatibility complex, class I, B [Source:HGNC Symbol;Acc:HGNC:4932]
Coordinates
chr6:31354635-31355223:-
Coord C1 exon
chr6:31355107-31355223
Coord A exon
chr6:31354662-31354683
Coord C2 exon
chr6:31354635-31354661
Length
22 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
TCCTCCCAGTGCCCTCACAGGAC
3' ss Score
4.86
Exon sequences
Seq C1 exon
AGCCGTCTTCCCAGTCCACCGTCCCCATCGTGGGCATTGTTGCTGGCCTGGCTGTCCTAGCAGTTGTGGTCATCGGAGCTGTGGTCGCTGCTGTGATGTGTAGGAGGAAGAGTTCAG
Seq A exon
GACATTTTCTTCCCACAGGTGG
Seq C2 exon
AAAAGGAGGGAGCTACTCTCAGGCTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000234745-17-35,17-33,17-32,17-31-2/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF066236=MHC_I_C=PU(14.3=5.0)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Other Inclusion 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:
ATTGTTGCTGGCCTGGCTG
R:
CAGCCTGAGAGTAGCTCCCTC
Band lengths:
108-130
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains