HsaEX1016896 @ hg38
Exon Skipping
Gene
ENSG00000179344 | HLA-DQB1
Description
major histocompatibility complex, class II, DQ beta 1 [Source:HGNC Symbol;Acc:HGNC:4944]
Coordinates
chr6:32660374-32665067:-
Coord C1 exon
chr6:32661347-32665067
Coord A exon
chr6:32660859-32660882
Coord C2 exon
chr6:32660374-32660474
Length
24 bp
Sequences
Splice sites
3' ss Seq
TGCATAACTTCCTTTTGTAAGAC
3' ss Score
0.96
5' ss Seq
CAGGTAATA
5' ss Score
8.55
Exon sequences
Seq C1 exon
AGCACCTCTTGCTCCATGGCAAGTGCATCAGAAGAATCCTGGTCTCATCACCTTTCCAGATGCTAGGGAAATTACTCTACATACTGTTGCTCTGAATCCCAGTCCTGATAGCTCTGAGGGACTGATTCTTAGGGCTGGTGACTGGGATCTTAGGGTCTAAGGTTATGGATGAGTTCTTGAAGAGCAGAGATTTGCTTCCCCACTCTCTCACCTATTCACTGTATCCAAGGACCTATTGGCTGGTCTTTCCCCTCCTTAGGGGTGGTCTGAATGGAGAACTAGGTTCCTTTGATGCCTTCACCTTCTGCACCTCAGACTGGACTTCAACTCCTCAGCAGGGATGCTATGGGGTGTGGGGACAAACACAGACACTCAGTTCTGCTCTTTAGGGGCTCAGTCTGAATCTGCCCAGAGCAAGATGCTGAGTGGCGTTGGAGGCTTCGTGCTGGGGCTGATCTTCCTTGGGCTGGGCCTTATCATCCGTCAAAGGAGTCAGAAAG
Seq A exon
GACCTCAAGGGCCTCCACCAGCAG
Seq C2 exon
AAGAATAACAGCTGTTCCCCACCTCCCACACATCTGCATCAAGCTGAAGTTCTGTGTCCTCATGAGCTGATTTCACCTTTGCACAGATCTTGGGGGAGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000179344-'12-17,'12-16,13-17
Average complexity
C3
Mappability confidence:
100%=75=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=0.778 C2=NA
Domain overlap (PFAM):
C1:
PF0765410=C1-set=PD(9.3=23.7)
A:
NO
C2:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
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:
TGCTGGGGCTGATCTTCCTT
R:
AGCTTGATGCAGATGTGTGGG
Band lengths:
102-126
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains