HsaALTA1058847-1/4 @ hg38
Alternative 3'ss
Gene
ENSG00000234745 | HLA-B
Description
major histocompatibility complex, class I, B [Source:HGNC Symbol;Acc:HGNC:4932]
Coordinates
chr6:31355522-31356957:-
Coord C1 exon
chr6:31356688-31356957
Coord A exon
NA
Coord C2 exon
chr6:31355522-31355592
Length
0 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
TTTCTGACTCTTCCCATCAGACC
3' ss Score
8.45
Exon sequences
Seq C1 exon
GCTCCCACTCCATGAGGTATTTCTACACCTCCGTGTCCCGGCCCGGCCGCGGGGAGCCCCGCTTCATCTCAGTGGGCTACGTGGACGACACCCAGTTCGTGAGGTTCGACAGCGACGCCGCGAGTCCGAGAGAGGAGCCGCGGGCGCCGTGGATAGAGCAGGAGGGGCCGGAGTATTGGGACCGGAACACACAGATCTACAAGGCCCAGGCACAGACTGACCGAGAGAGCCTGCGGAACCTGCGCGGCTACTACAACCAGAGCGAGGCCG
Seq A exon
NA
Seq C2 exon
ACCCCCCAAAGACACACGTGACCCACCACCCCATCTCTGACCATGAGGCCACCCTGAGGTGCTGGGCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000234745-4-18,4-17,4-16,4-15-1/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.409 A=NA C2=0.377
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(50.3=98.9)
A:
NA
C2:
PF0765410=C1-set=WD(100=92.5)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGGGACCGGAACACACAGAT
R:
CCTCATGGTCAGAGATGGGGT
Band lengths:
143-195
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains