HsaEX0030103 @ hg19
Exon Skipping
Gene
ENSG00000242574 | HLA-DMB
Description
major histocompatibility complex, class II, DM beta [Source:HGNC Symbol;Acc:4935]
Coordinates
chr6:32903119-32905233:-
Coord C1 exon
chr6:32904949-32905233
Coord A exon
chr6:32903313-32903429
Coord C2 exon
chr6:32903119-32903154
Length
117 bp
Sequences
Splice sites
3' ss Seq
TAAGTTTCTATTTTTTGCAGCAC
3' ss Score
7.16
5' ss Seq
CTAGTGAGT
5' ss Score
7.43
Exon sequences
Seq C1 exon
GGCCACCATCTGTGCAAGTAGCCAAAACCACTCCTTTTAACACGAGGGAGCCTGTGATGCTGGCCTGCTATGTGTGGGGCTTCTATCCAGCAGAAGTGACTATCACGTGGAGGAAGAACGGGAAGCTTGTCATGCCTCACAGCAGTGCGCACAAGACTGCCCAGCCCAATGGAGACTGGACATACCAGACCCTCTCCCATTTAGCCTTAACCCCCTCTTACGGGGACACTTACACCTGTGTGGTAGAGCACACTGGGGCTCCTGAGCCCATCCTTCGGGACTGGA
Seq A exon
CACCTGGGCTGTCCCCCATGCAGACCCTGAAGGTTTCTGTGTCTGCAGTGACTCTGGGCCTGGGCCTCATCATCTTCTCTCTTGGTGTGATCAGCTGGCGGAGAGCTGGCCACTCTA
Seq C2 exon
GTTACACTCCTCTTCCTGGGTCCAATTATTCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000242574_MULTIEX1-1/2=C1-2
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
Show PDB structure
Features
Disorder rate (Iupred):
C1=0.152 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=87.5)
A:
NO
C2:
NO
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
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:
GATGCTGGCCTGCTATGTGTG
R:
TTGGACCCAGGAAGAGGAGTG
Band lengths:
255-372
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- 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)