Variant report

Variant	rs9405685
Chromosome Location	chr6:3963696-3963697
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs11751668	1.00[YRI][hapmap]
rs583881	1.00[YRI][hapmap]
rs678285	1.00[YRI][hapmap]
rs9378833	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9378835	0.90[EUR][1000 genomes]
rs9392541	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9392560	1.00[YRI][hapmap]
rs9405684	1.00[YRI][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	nsv532020	chr6:3417520-4140257	Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv1022968	chr6:3862744-4272502	Enhancers Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	nsv538106	chr6:3862744-4272502	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:3960800-3964000	Enhancers	NH-A	brain
2	chr6:3961600-3965600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr6:3962000-3965200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr6:3962800-3963800	Enhancers	Fetal Brain Female	brain
5	chr6:3962800-3964000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:3962800-3964000	Enhancers	HUVEC	blood vessel
7	chr6:3963000-3964800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr6:3963200-3963800	Enhancers	A549	lung
9	chr6:3963200-3964000	Enhancers	Breast Myoepithelial Primary Cells	Breast
10	chr6:3963200-3964200	Enhancers	Fetal Heart	heart
11	chr6:3963200-3964800	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr6:3963400-3964400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr6:3963400-3964600	Enhancers	Fetal Muscle Leg	muscle
14	chr6:3963400-3965000	Weak transcription	NHDF-Ad	bronchial
15	chr6:3963400-3965400	Weak transcription	Osteobl	bone
16	chr6:3963600-3964000	Bivalent Enhancer	HepG2	liver

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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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