Variant report

Variant	rs1406095
Chromosome Location	chr11:8094682-8094683
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1881240	0.86[JPT][hapmap];0.85[AMR][1000 genomes]
rs35875365	0.90[ASN][1000 genomes]
rs4758280	0.87[ASN][1000 genomes]
rs4758283	0.87[JPT][hapmap];0.86[ASN][1000 genomes]
rs55680063	0.87[ASN][1000 genomes]
rs56103249	0.84[ASN][1000 genomes]
rs6578921	0.87[CHB][hapmap];0.89[CHD][hapmap];0.91[GIH][hapmap];0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs7102305	0.82[CHD][hapmap];0.88[GIH][hapmap];0.82[JPT][hapmap];0.83[MEX][hapmap];0.82[ASN][1000 genomes]
rs7113729	0.86[JPT][hapmap]
rs7114018	0.86[JPT][hapmap]
rs7114039	0.83[CHB][hapmap];0.84[CHD][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs7932687	0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1052808	chr11:8011647-8129191	Bivalent Enhancer Strong transcription Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	esv1829170	chr11:8068594-8216369	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv428249	chr11:8068594-8216369	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs1406095	OR51Q1	cis	parietal	SCAN
rs1406095	OR52D1	cis	cerebellum	SCAN
rs1406095	OR56B4	cis	cerebellum	SCAN

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:8091600-8100200	Weak transcription	Pancreas	Pancrea
2	chr11:8092600-8094800	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
3	chr11:8092600-8095000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
4	chr11:8092800-8094800	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
5	chr11:8093000-8101800	Weak transcription	Fetal Brain Female	brain
6	chr11:8093200-8095400	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr11:8093400-8095600	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr11:8093400-8095600	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
9	chr11:8093600-8094800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
10	chr11:8093600-8095200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr11:8093600-8095400	Enhancers	Brain Anterior Caudate	brain
12	chr11:8094000-8095400	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
13	chr11:8094000-8101800	Weak transcription	Brain Angular Gyrus	brain
14	chr11:8094000-8101800	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr11:8094400-8095200	Enhancers	H1 Cell Line	embryonic stem cell
16	chr11:8094400-8095400	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr11:8094400-8100800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr11:8094400-8101200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr11:8094600-8095000	Weak transcription	Brain Cingulate Gyrus	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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