Variant report

Variant	rs2516655
Chromosome Location	chr6:30490378-30490379
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:30482846..30485548-chr6:30486423..30490763,6	MCF-7	breast:
2	chr6:30456400..30459187-chr6:30486953..30490671,4	MCF-7	breast:
3	chr6:30482844..30485585-chr6:30488298..30490571,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000235781	Chromatin interaction
ENSG00000204592	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs1362119	0.83[EUR][1000 genomes]
rs1468079	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2023608	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2023609	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2074505	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2429655	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2429656	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2508021	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2508024	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2516639	0.82[EUR][1000 genomes]
rs2516642	0.80[EUR][1000 genomes]
rs2516643	0.81[EUR][1000 genomes]
rs2516644	0.83[EUR][1000 genomes]
rs2516646	0.82[EUR][1000 genomes]
rs2516648	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2516649	0.83[EUR][1000 genomes]
rs2516653	0.86[EUR][1000 genomes]
rs2516656	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2516659	0.81[ASN][1000 genomes]
rs2516662	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2524221	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2524224	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2524225	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2534802	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2534806	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2534807	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2534809	0.84[EUR][1000 genomes]
rs2534810	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2534811	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2534812	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2534813	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2534815	0.83[EUR][1000 genomes]
rs2534823	0.83[EUR][1000 genomes]
rs2534824	0.83[EUR][1000 genomes]
rs2534825	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2844713	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2844714	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2844715	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2844716	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2844717	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2844718	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2844720	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2844723	0.84[EUR][1000 genomes]
rs2844724	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2844725	0.80[EUR][1000 genomes]
rs3094718	0.83[EUR][1000 genomes]
rs3095280	0.82[EUR][1000 genomes]
rs3130039	0.82[EUR][1000 genomes]
rs3130043	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3130045	0.82[AMR][1000 genomes]
rs3130243	0.80[EUR][1000 genomes]
rs3130244	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3132609	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9262070	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9262082	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9262118	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs975195	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs996588	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs996589	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025667	chr6:30292845-30638066	Flanking Active TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	825 gene(s)	inside rSNPs	diseases
2	esv3519970	chr6:30382942-31378788	Genic enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1030 gene(s)	inside rSNPs	diseases
3	esv3519971	chr6:30382942-31378788	Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1030 gene(s)	inside rSNPs	diseases
4	nsv601481	chr6:30422632-31284253	Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1012 gene(s)	inside rSNPs	diseases
5	nsv884077	chr6:30434900-30512163	Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
6	esv3430377	chr6:30443802-30814426	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	967 gene(s)	inside rSNPs	diseases
7	nsv884086	chr6:30462084-30672757	Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	798 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30484800-30495200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr6:30486000-30500000	Weak transcription	Thymus	Thymus
3	chr6:30486600-30492400	Weak transcription	Primary B cells from peripheral blood	blood
4	chr6:30487200-30490800	Enhancers	Primary T helper cells PMA-I stimulated	--
5	chr6:30488200-30495600	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr6:30488400-30495800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr6:30488600-30490400	Enhancers	Muscle Satellite Cultured Cells	--
8	chr6:30489400-30490600	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr6:30489400-30495000	Weak transcription	HUVEC	blood vessel
10	chr6:30489400-30495200	Weak transcription	HepG2	liver
11	chr6:30489400-30495400	Weak transcription	Stomach Mucosa	stomach
12	chr6:30489400-30495800	Weak transcription	Osteobl	bone
13	chr6:30490000-30490400	Enhancers	Primary neutrophils fromperipheralblood	blood
14	chr6:30490000-30495400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr6:30490200-30491200	Weak transcription	NHEK	skin

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