Variant report

Variant	rs6540830
Chromosome Location	chr1:214615200-214615201
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:214611152..214615489-chr1:214618364..214620847,4	MCF-7	breast:
2	chr1:214614481..214615989-chr1:214619724..214621377,2	MCF-7	breast:
3	chr1:214613502..214615367-chr4:18740993..18743992,2	MCF-7	breast:

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10494980	1.00[CEU][hapmap];0.83[ASN][1000 genomes]
rs10864100	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10864101	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10864102	0.85[CEU][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10864103	1.00[CEU][hapmap];0.81[CHB][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11120329	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11120330	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11120331	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11120332	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11120333	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12068677	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12128034	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12739305	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12739336	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12743237	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12757384	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12757776	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17023030	1.00[CEU][hapmap]
rs4145623	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4233301	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4233302	1.00[CEU][hapmap];0.81[CHB][hapmap];0.87[JPT][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4233303	0.81[ASN][1000 genomes]
rs4233304	1.00[CEU][hapmap];0.81[CHB][hapmap];0.87[JPT][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4233306	1.00[CEU][hapmap];0.83[ASN][1000 genomes]
rs4269744	1.00[CEU][hapmap];0.81[CHB][hapmap];0.87[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4284238	1.00[CEU][hapmap];0.81[CHB][hapmap];0.87[JPT][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4301608	0.86[CHB][hapmap]
rs4451529	0.85[CHB][hapmap];1.00[YRI][hapmap]
rs4465172	0.87[CHB][hapmap]
rs4474219	1.00[CEU][hapmap];0.81[CHB][hapmap];0.87[JPT][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4480328	0.83[ASN][1000 genomes]
rs4571940	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4655250	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4655251	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4655252	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4655253	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4655254	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4655255	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4655256	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4655258	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4655259	1.00[CEU][hapmap];0.81[CHB][hapmap];0.87[JPT][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4655347	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4655348	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4655349	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4655350	0.86[CEU][hapmap];0.81[CHB][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4655351	1.00[CEU][hapmap];0.81[CHB][hapmap];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4655352	0.86[CEU][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4655355	0.80[ASN][1000 genomes]
rs5020616	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs5020617	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6540831	0.87[CHB][hapmap]
rs6540835	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6540838	1.00[CEU][hapmap];0.81[CHB][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6540841	0.83[ASN][1000 genomes]
rs6661786	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6668440	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6671350	0.81[CEU][hapmap]
rs6676807	1.00[CEU][hapmap];0.81[CHB][hapmap];0.87[JPT][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6676956	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6682627	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs6682847	1.00[CEU][hapmap];0.86[CHB][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6684018	0.88[CEU][hapmap];0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6685434	1.00[CEU][hapmap];0.81[CHB][hapmap];0.87[JPT][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6689084	1.00[CEU][hapmap];0.81[CHB][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6691633	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7518513	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7525020	1.00[CEU][hapmap];0.81[CHB][hapmap];0.87[JPT][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7527320	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7528315	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7531610	1.00[CEU][hapmap];0.81[CHB][hapmap];0.87[JPT][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7535598	0.87[CHB][hapmap];1.00[YRI][hapmap]
rs7540188	0.94[CEU][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7540288	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:214594000-214618000	Weak transcription	Stomach Smooth Muscle	stomach
2	chr1:214601600-214625200	Weak transcription	Esophagus	oesophagus
3	chr1:214601600-214633000	Weak transcription	Gastric	stomach
4	chr1:214602800-214617600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr1:214604000-214617600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr1:214610400-214615800	Enhancers	HUVEC	blood vessel
7	chr1:214610400-214620600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr1:214610600-214617000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr1:214611200-214615400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr1:214611600-214615800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr1:214611600-214616200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
12	chr1:214611600-214616200	Enhancers	iPS-15b Cell Line	embryonic stem cell
13	chr1:214611600-214619200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr1:214611600-214620400	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr1:214611800-214618000	Weak transcription	Right Atrium	heart
16	chr1:214611800-214620400	Weak transcription	Fetal Muscle Trunk	muscle
17	chr1:214611800-214623200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr1:214612200-214616000	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr1:214612600-214615200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr1:214612600-214615200	Enhancers	Placenta Amnion	Placenta Amnion
21	chr1:214612800-214615200	Enhancers	H9 Cell Line	embryonic stem cell
22	chr1:214612800-214615400	Enhancers	H1 Cell Line	embryonic stem cell
23	chr1:214612800-214615400	Enhancers	Dnd41	blood
24	chr1:214612800-214616800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
25	chr1:214613000-214619800	Weak transcription	Fetal Brain Male	brain
26	chr1:214613000-214649400	Weak transcription	Lung	lung
27	chr1:214613200-214615600	Genic enhancers	Osteobl	bone
28	chr1:214613200-214616800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr1:214613200-214617600	Weak transcription	Fetal Stomach	stomach
30	chr1:214613200-214617800	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr1:214613200-214618400	Weak transcription	Left Ventricle	heart
32	chr1:214613200-214620600	Enhancers	ES-I3 Cell Line	embryonic stem cell
33	chr1:214613200-214620600	Enhancers	HUES6 Cell Line	embryonic stem cell
34	chr1:214613200-214628400	Weak transcription	Ovary	ovary
35	chr1:214613200-214633400	Weak transcription	Pancreas	Pancrea
36	chr1:214613400-214615400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr1:214613400-214616000	Enhancers	HMEC	breast
38	chr1:214613400-214616200	Enhancers	HUES48 Cell Line	embryonic stem cell
39	chr1:214613400-214616200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr1:214613400-214617000	Weak transcription	HSMMtube	muscle
41	chr1:214613400-214618000	Weak transcription	Adipose Nuclei	Adipose
42	chr1:214613400-214620200	Weak transcription	Brain Angular Gyrus	brain
43	chr1:214613600-214615200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr1:214613600-214615200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr1:214613600-214615600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr1:214613600-214616000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr1:214613600-214617000	Weak transcription	Fetal Muscle Leg	muscle
48	chr1:214613600-214618000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr1:214613600-214618200	Weak transcription	Colonic Mucosa	Colon
50	chr1:214613600-214618600	Weak transcription	Placenta	Placenta

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