Variant report

Variant	rs6495459
Chromosome Location	chr15:34314566-34314567
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:34305364..34307142-chr15:34311936..34314862,2	MCF-7	breast:
2	chr15:34314534..34316475-chr15:34330485..34333173,2	MCF-7	breast:
3	chr15:34314027..34315859-chr15:34326232..34328519,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169857	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11635377	0.86[JPT][hapmap]
rs11857888	0.83[ASN][1000 genomes]
rs1872806	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2078561	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2078562	0.91[CEU][hapmap];0.91[CHB][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2243858	0.90[CHB][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2632075	0.91[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.97[TSI][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2632076	0.91[CHB][hapmap];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2632078	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2632079	0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2632107	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2684931	1.00[CEU][hapmap];0.91[CHB][hapmap];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2684932	0.91[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.97[TSI][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2684933	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2684941	0.83[CHB][hapmap]
rs2684953	0.91[GIH][hapmap];0.90[TSI][hapmap];0.87[EUR][1000 genomes]
rs2684956	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2684958	0.88[EUR][1000 genomes]
rs2702278	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2702281	0.91[CHB][hapmap];0.85[ASN][1000 genomes]
rs2702282	0.91[CHB][hapmap];0.98[CHD][hapmap];0.85[ASN][1000 genomes]
rs2702284	1.00[CEU][hapmap];0.91[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2702285	1.00[CEU][hapmap];0.91[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28471985	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34571863	0.84[ASN][1000 genomes]
rs3850096	0.85[JPT][hapmap]
rs5016373	0.85[ASN][1000 genomes]
rs525591	1.00[EUR][1000 genomes]
rs55805034	0.85[ASN][1000 genomes]
rs61611317	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6495419	0.84[TSI][hapmap]
rs6495448	0.94[ASW][hapmap];1.00[CEU][hapmap];0.91[GIH][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7177293	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7181861	0.86[JPT][hapmap]
rs718690	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8024385	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs8029071	0.82[JPT][hapmap]
rs8029961	0.82[CHB][hapmap];0.85[JPT][hapmap]
rs8030334	0.87[CHB][hapmap];0.95[CHD][hapmap]
rs8035125	1.00[CEU][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap];0.95[EUR][1000 genomes]
rs8035294	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs8039574	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs8039609	1.00[CEU][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap];0.95[EUR][1000 genomes]
rs9806210	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043046	chr15:33714908-34321330	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv456789	chr15:34034421-34426618	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv568920	chr15:34034421-34426618	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv471235	chr15:34035529-34421951	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	nsv903985	chr15:34279319-34370487	Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34292000-34315000	Weak transcription	Aorta	Aorta
2	chr15:34294800-34315600	Weak transcription	Left Ventricle	heart
3	chr15:34304200-34319800	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr15:34309000-34317400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr15:34309400-34316000	Weak transcription	Brain Angular Gyrus	brain
6	chr15:34309400-34330000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr15:34309600-34330000	Weak transcription	Stomach Smooth Muscle	stomach
8	chr15:34310600-34315800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr15:34310800-34315800	Weak transcription	Fetal Stomach	stomach
10	chr15:34311000-34318600	Weak transcription	Primary T cells from cord blood	blood
11	chr15:34311200-34315000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr15:34311200-34315800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr15:34312600-34314600	Weak transcription	Placenta	Placenta
14	chr15:34314000-34315000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr15:34314200-34314600	Enhancers	Brain Cingulate Gyrus	brain
16	chr15:34314200-34315000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr15:34314200-34315000	Enhancers	Brain Anterior Caudate	brain
18	chr15:34314200-34326400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr15:34314400-34314600	Enhancers	Rectal Smooth Muscle	rectum
20	chr15:34314400-34315000	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr15:34314400-34315000	Enhancers	Fetal Brain Female	brain
22	chr15:34314400-34316400	Enhancers	Brain Substantia Nigra	brain

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