Variant report

Variant	rs6707255
Chromosome Location	chr2:97612214-97612215
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:97480838..97482571-chr2:97609984..97612595,2	MCF-7	breast:
2	chr2:97516728..97547486-chr2:97588377..97628331,265	MCF-7	breast:
3	chr2:97497731..97500526-chr2:97610997..97613941,2	MCF-7	breast:
4	chr2:97591274..97594233-chr2:97611259..97613898,3	MCF-7	breast:
5	chr2:97524495..97526579-chr2:97610763..97613644,2	K562	blood:
6	chr2:97610586..97615218-chr2:97625029..97628319,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000213337	Chromatin interaction
ENSG00000163126	Chromatin interaction
ENSG00000168758	Chromatin interaction
ENSG00000168763	Chromatin interaction

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10202644	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11682994	1.00[YRI][hapmap]
rs1257000	0.81[AMR][1000 genomes]
rs1257008	0.85[AMR][1000 genomes]
rs1257009	0.86[AMR][1000 genomes]
rs1257011	0.86[AMR][1000 genomes]
rs1257012	0.86[AMR][1000 genomes]
rs1257015	0.82[GIH][hapmap];0.83[MEX][hapmap];0.86[AMR][1000 genomes]
rs1257016	0.81[AMR][1000 genomes]
rs1257017	0.86[AMR][1000 genomes]
rs1257018	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1257019	1.00[CEU][hapmap];1.00[GIH][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1257020	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1257027	0.82[GIH][hapmap];0.83[MEX][hapmap];0.84[AMR][1000 genomes]
rs1257028	0.86[AMR][1000 genomes]
rs1257029	0.83[MEX][hapmap];0.81[AMR][1000 genomes]
rs1268682	0.86[AMR][1000 genomes]
rs12717785	0.94[CEU][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12717786	0.87[EUR][1000 genomes]
rs12717787	0.84[AMR][1000 genomes]
rs13016654	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13021723	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1623881	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1624844	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1730106	0.81[AMR][1000 genomes]
rs1730119	0.81[AMR][1000 genomes]
rs1730120	0.81[AMR][1000 genomes]
rs1730122	0.82[GIH][hapmap];0.83[MEX][hapmap];0.86[AMR][1000 genomes]
rs1730123	0.83[AMR][1000 genomes]
rs1730124	0.82[AMR][1000 genomes]
rs1730126	1.00[CEU][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1730127	0.88[CEU][hapmap];0.95[GIH][hapmap];0.92[MEX][hapmap];0.87[TSI][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1730128	1.00[CEU][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1730129	0.83[CEU][hapmap];0.97[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1730130	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1730131	1.00[CEU][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1796027	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1796028	1.00[CEU][hapmap];1.00[GIH][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1796029	1.00[YRI][hapmap];0.90[AMR][1000 genomes]
rs1796032	0.83[MEX][hapmap];0.83[AMR][1000 genomes]
rs1796038	0.81[AMR][1000 genomes]
rs1796041	0.86[AMR][1000 genomes]
rs1796044	1.00[CEU][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1796045	1.00[CEU][hapmap];1.00[GIH][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1796046	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1796047	1.00[CEU][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1796049	0.84[AMR][1000 genomes]
rs2678385	1.00[YRI][hapmap]
rs34434950	0.86[AMR][1000 genomes]
rs34895357	0.84[AMR][1000 genomes]
rs4263148	0.81[AMR][1000 genomes]
rs4366944	0.83[AMR][1000 genomes]
rs4586672	0.83[MEX][hapmap];0.83[AMR][1000 genomes]
rs4907251	0.83[MKK][hapmap];1.00[YRI][hapmap]
rs62152868	0.84[AFR][1000 genomes]
rs6576992	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6576993	0.83[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6576994	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6576995	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6576999	0.81[AMR][1000 genomes]
rs6714860	0.84[AMR][1000 genomes]
rs6715329	0.86[AMR][1000 genomes]
rs6725927	0.87[CEU][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6757916	0.81[AMR][1000 genomes]
rs7569434	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7584318	0.90[AMR][1000 genomes]
rs7584335	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7593493	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7597743	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933671	chr2:96739308-97652262	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
2	nsv1000780	chr2:96740430-97671395	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
3	nsv535826	chr2:96740430-97671395	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
4	nsv874677	chr2:96756547-97717345	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
5	nsv1001204	chr2:96766559-97728507	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription 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	162 gene(s)	inside rSNPs	diseases
6	nsv535827	chr2:96766559-97728507	Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
7	nsv874680	chr2:97309574-97678319	Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
8	nsv526313	chr2:97333492-97660619	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
9	nsv582497	chr2:97569305-97715154	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS 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	18 gene(s)	inside rSNPs	diseases
10	esv2757819	chr2:97571109-98336507	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	64 gene(s)	inside rSNPs	diseases
11	esv2759077	chr2:97571109-98336507	Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Weak transcription Strong transcription Bivalent/Poised TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	64 gene(s)	inside rSNPs	diseases
12	nsv1001432	chr2:97591069-97671395	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:97606200-97616000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr2:97610400-97616600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr2:97610400-97617400	Enhancers	Brain Substantia Nigra	brain
4	chr2:97611000-97615600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr2:97611000-97616400	Weak transcription	Primary T helper cells PMA-I stimulated	--
6	chr2:97611000-97616600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr2:97611200-97615800	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr2:97611200-97616000	Weak transcription	Fetal Thymus	thymus
9	chr2:97611200-97616200	Weak transcription	Brain Germinal Matrix	brain
10	chr2:97611200-97616400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr2:97611200-97616400	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr2:97611200-97616800	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr2:97611200-97618000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr2:97611400-97613200	Weak transcription	Brain Angular Gyrus	brain
15	chr2:97611400-97613200	Weak transcription	Brain Anterior Caudate	brain
16	chr2:97611400-97615600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr2:97611400-97615600	Weak transcription	Fetal Brain Male	brain
18	chr2:97611400-97615800	Weak transcription	Fetal Lung	lung
19	chr2:97611400-97616000	Weak transcription	Fetal Brain Female	brain
20	chr2:97611400-97616000	Weak transcription	Rectal Smooth Muscle	rectum
21	chr2:97611600-97612800	Weak transcription	K562	blood
22	chr2:97611600-97613000	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr2:97611600-97615200	Weak transcription	Stomach Smooth Muscle	stomach
24	chr2:97611600-97616000	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr2:97611800-97612400	Weak transcription	Brain Hippocampus Middle	brain
26	chr2:97611800-97615400	Weak transcription	Colon Smooth Muscle	Colon
27	chr2:97611800-97615800	Weak transcription	Fetal Heart	heart
28	chr2:97612000-97612800	Bivalent Enhancer	HepG2	liver
29	chr2:97612000-97613400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr2:97612200-97613400	Weak transcription	Brain Cingulate Gyrus	brain

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