Variant report

Variant	rs6656400
Chromosome Location	chr1:172447253-172447254
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:16)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr1:172445938..172447546-chr1:172551901..172554471,2	MCF-7	breast:
2	chr1:172444678..172448407-chr1:172449595..172452783,4	MCF-7	breast:
3	chr1:172430415..172432096-chr1:172445397..172448022,2	MCF-7	breast:
4	chr1:172442117..172444152-chr1:172447245..172449151,2	MCF-7	breast:
5	chr1:172445585..172447486-chr1:172451188..172453477,2	MCF-7	breast:
6	chr1:172445706..172447652-chr1:172448722..172450346,2	MCF-7	breast:
7	chr1:172443498..172448130-chr1:172464565..172470217,6	MCF-7	breast:
8	chr1:172446186..172449465-chr1:172453290..172456468,4	MCF-7	breast:
9	chr1:172417013..172420317-chr1:172444254..172448233,5	MCF-7	breast:
10	chr1:172443879..172448097-chr1:172501090..172503799,4	MCF-7	breast:
11	chr1:172446479..172448732-chr1:172458386..172460620,2	MCF-7	breast:
12	chr1:172446019..172448737-chr1:172490304..172491873,2	MCF-7	breast:
13	chr1:172443532..172455037-chr1:172498094..172506505,15	MCF-7	breast:
14	chr1:172421586..172423594-chr1:172445485..172447326,2	MCF-7	breast:
15	chr1:172418092..172419733-chr1:172445872..172448682,2	MCF-7	breast:
16	chr1:172444481..172448040-chr1:172465983..172470352,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000094975	Chromatin interaction
ENSG00000180999	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1009802	0.95[CEU][hapmap];1.00[GIH][hapmap];0.87[YRI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1041911	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10911792	0.87[CEU][hapmap]
rs2001130	0.81[AFR][1000 genomes]
rs2032528	0.82[CEU][hapmap]
rs2213738	0.87[ASW][hapmap];0.95[YRI][hapmap];0.81[AFR][1000 genomes]
rs4916263	0.87[CEU][hapmap]
rs4916264	0.87[CEU][hapmap]
rs4916265	0.87[CEU][hapmap]
rs6659116	0.83[AFR][1000 genomes]
rs71485882	0.90[EUR][1000 genomes]
rs7551242	0.87[ASW][hapmap];0.87[CEU][hapmap];0.95[GIH][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9425330	0.87[ASW][hapmap];0.95[YRI][hapmap];0.81[AFR][1000 genomes]
rs9425332	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9425333	0.95[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425623	0.94[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425625	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[GIH][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9425628	0.87[CEU][hapmap]

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172438200-172449200	Weak transcription	Fetal Muscle Leg	muscle
2	chr1:172443000-172448400	Weak transcription	K562	blood
3	chr1:172444200-172448000	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr1:172444200-172448400	Enhancers	HMEC	breast
5	chr1:172444200-172456200	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr1:172444400-172448200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr1:172444400-172448200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr1:172445000-172449400	Weak transcription	Primary T cells from cord blood	blood
9	chr1:172445000-172452400	Weak transcription	Primary neutrophils fromperipheralblood	blood
10	chr1:172445200-172447600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr1:172445400-172447400	Enhancers	Placenta	Placenta
12	chr1:172445600-172448600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr1:172445600-172449800	Weak transcription	HepG2	liver
14	chr1:172445800-172448600	Enhancers	NHEK	skin
15	chr1:172445800-172449200	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr1:172445800-172450800	Weak transcription	Fetal Intestine Large	intestine
17	chr1:172445800-172451000	Weak transcription	Fetal Intestine Small	intestine
18	chr1:172445800-172451600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr1:172446600-172448000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr1:172446800-172447800	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr1:172446800-172449200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr1:172446800-172449200	Weak transcription	Pancreas	Pancrea
23	chr1:172446800-172451000	Weak transcription	A549	lung

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