Variant report

Variant	rs7551402
Chromosome Location	chr1:57016633-57016634
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:57015989..57018935-chr1:57031658..57034048,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10493211	0.92[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10789026	1.00[JPT][hapmap]
rs10888977	0.84[CEU][hapmap];0.92[EUR][1000 genomes]
rs10888978	1.00[JPT][hapmap]
rs11206831	1.00[JPT][hapmap]
rs11206832	1.00[JPT][hapmap]
rs11206835	1.00[JPT][hapmap]
rs11206838	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11576602	1.00[JPT][hapmap]
rs11582172	1.00[JPT][hapmap]
rs12082242	0.89[EUR][1000 genomes]
rs12134109	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12402226	1.00[JPT][hapmap]
rs12406517	1.00[JPT][hapmap]
rs1572057	1.00[JPT][hapmap]
rs1930760	0.82[EUR][1000 genomes]
rs2017955	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3738570	1.00[JPT][hapmap]
rs3927762	1.00[JPT][hapmap]
rs56123357	0.80[AMR][1000 genomes]
rs56152906	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs72664362	0.89[ASN][1000 genomes]
rs7528118	1.00[JPT][hapmap]
rs8016	1.00[JPT][hapmap]
rs869934	1.00[JPT][hapmap]
rs953856	0.85[CEU][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs953857	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869295	chr1:56894955-57656562	Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57001200-57018800	Weak transcription	A549	lung
2	chr1:57001800-57018600	Weak transcription	Small Intestine	intestine
3	chr1:57001800-57021800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr1:57002800-57018600	Weak transcription	Thymus	Thymus
5	chr1:57003200-57019800	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr1:57007400-57028400	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr1:57009600-57028000	Weak transcription	Fetal Kidney	kidney
8	chr1:57010400-57019200	Enhancers	H1 Cell Line	embryonic stem cell
9	chr1:57010400-57019600	Enhancers	Right Ventricle	heart
10	chr1:57010600-57017200	Enhancers	Brain Inferior Temporal Lobe	brain
11	chr1:57011000-57017200	Enhancers	Brain Anterior Caudate	brain
12	chr1:57011000-57020200	Enhancers	Brain Hippocampus Middle	brain
13	chr1:57011800-57018000	Enhancers	Brain Substantia Nigra	brain
14	chr1:57012000-57016800	Enhancers	HepG2	liver
15	chr1:57012000-57017000	Weak transcription	Stomach Smooth Muscle	stomach
16	chr1:57012000-57017000	Weak transcription	Spleen	Spleen
17	chr1:57012200-57017800	Enhancers	Skeletal Muscle Male	skeletal muscle
18	chr1:57012400-57017000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr1:57012600-57019200	Enhancers	H9 Cell Line	embryonic stem cell
20	chr1:57012600-57019600	Enhancers	Brain Angular Gyrus	brain
21	chr1:57012600-57020000	Enhancers	Adipose Nuclei	Adipose
22	chr1:57012800-57017000	Enhancers	Cortex derived primary cultured neurospheres	brain
23	chr1:57013000-57016800	Weak transcription	Rectal Smooth Muscle	rectum
24	chr1:57013000-57017800	Enhancers	Skeletal Muscle Female	skeletal muscle
25	chr1:57013000-57019400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr1:57013000-57019400	Genic enhancers	Fetal Muscle Leg	muscle
27	chr1:57013000-57019400	Enhancers	Psoas Muscle	Psoas
28	chr1:57013000-57019800	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr1:57013000-57020000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
30	chr1:57013200-57017000	Weak transcription	Fetal Brain Female	brain
31	chr1:57013200-57017800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
32	chr1:57013200-57017800	Enhancers	Right Atrium	heart
33	chr1:57013200-57018000	Enhancers	Ovary	ovary
34	chr1:57013200-57019200	Enhancers	ES-I3 Cell Line	embryonic stem cell
35	chr1:57013200-57021000	Enhancers	Brain Cingulate Gyrus	brain
36	chr1:57013400-57017800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr1:57013400-57018600	Enhancers	Liver	Liver
38	chr1:57014000-57026000	Weak transcription	Fetal Intestine Large	intestine
39	chr1:57014400-57017000	Weak transcription	Esophagus	oesophagus
40	chr1:57014400-57017200	Strong transcription	HSMM	muscle
41	chr1:57014400-57018800	Weak transcription	Placenta Amnion	Placenta Amnion
42	chr1:57014600-57017200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr1:57014800-57016800	Enhancers	Brain Germinal Matrix	brain
44	chr1:57014800-57017400	Genic enhancers	Placenta	Placenta
45	chr1:57014800-57017400	Enhancers	Fetal Thymus	thymus
46	chr1:57014800-57017800	Enhancers	Breast Myoepithelial Primary Cells	Breast
47	chr1:57014800-57019000	Weak transcription	Osteobl	bone
48	chr1:57014800-57019600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr1:57015000-57017800	Enhancers	Colon Smooth Muscle	Colon
50	chr1:57015000-57019000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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