Variant report

Variant	rs10259103
Chromosome Location	chr7:101541136-101541137
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:101540323..101541951-chr7:101544080..101545637,2	MCF-7	breast:
2	chr7:101540840..101542361-chr7:101651553..101653872,2	MCF-7	breast:
3	chr7:101528248..101529991-chr7:101540450..101543058,2	K562	blood:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10081174	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10226289	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10227516	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10240601	0.99[EUR][1000 genomes]
rs10241905	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10242019	0.89[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10255356	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10256232	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10259964	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10261524	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10264844	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10264855	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10264866	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10271171	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10271610	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10271838	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10279763	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12532535	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12534641	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12539310	0.81[AMR][1000 genomes]
rs13227531	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13229243	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13236072	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13241079	0.81[ASN][1000 genomes]
rs13241252	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2410921	0.88[ASN][1000 genomes]
rs28409703	0.87[ASN][1000 genomes]
rs34750675	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35065711	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4729759	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4729760	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55824493	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60656667	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72603509	0.81[AMR][1000 genomes]
rs72603510	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72603511	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72603512	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9656073	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024319	chr7:101368299-101668159	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
2	nsv539047	chr7:101368299-101668159	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
3	nsv1020372	chr7:101420819-101718950	Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
4	nsv482846	chr7:101539981-101707666	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 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	chr7:101523200-101543200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr7:101526400-101542200	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr7:101526800-101543000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr7:101527000-101543000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr7:101527000-101543000	Weak transcription	NHEK	skin
6	chr7:101527200-101542200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr7:101528600-101555200	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr7:101528800-101544000	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr7:101529400-101543000	Weak transcription	Brain Substantia Nigra	brain
10	chr7:101529400-101554200	Weak transcription	Primary T cells from cord blood	blood
11	chr7:101530600-101559800	Weak transcription	GM12878-XiMat	blood
12	chr7:101531000-101545000	Weak transcription	Gastric	stomach
13	chr7:101531000-101548000	Weak transcription	Primary B cells from peripheral blood	blood
14	chr7:101531400-101543000	Weak transcription	Placenta	Placenta
15	chr7:101531400-101554600	Weak transcription	Hela-S3	cervix
16	chr7:101533800-101559000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr7:101534200-101546600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr7:101535000-101544800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr7:101535400-101554400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr7:101535600-101554200	Weak transcription	HepG2	liver
21	chr7:101535600-101554600	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr7:101535800-101541200	Weak transcription	Adipose Nuclei	Adipose
23	chr7:101535800-101543200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr7:101535800-101543200	Weak transcription	HSMMtube	muscle
25	chr7:101535800-101555200	Weak transcription	Liver	Liver
26	chr7:101535800-101555600	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr7:101536000-101541200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr7:101536000-101541200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr7:101536000-101542400	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr7:101536000-101543000	Weak transcription	HSMM	muscle
31	chr7:101536000-101543600	Weak transcription	A549	lung
32	chr7:101536200-101541200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr7:101536200-101541200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr7:101536800-101543800	Weak transcription	Brain Germinal Matrix	brain
35	chr7:101537000-101543400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr7:101537000-101543600	Weak transcription	Ovary	ovary
37	chr7:101537000-101547600	Weak transcription	Primary monocytes fromperipheralblood	blood
38	chr7:101537000-101547600	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr7:101537000-101554400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr7:101537000-101554600	Weak transcription	Fetal Intestine Large	intestine
41	chr7:101537400-101542200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr7:101537600-101541200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr7:101537600-101559000	Weak transcription	Duodenum Mucosa	Duodenum
44	chr7:101538600-101541200	Enhancers	Skeletal Muscle Male	skeletal muscle
45	chr7:101538600-101541400	Enhancers	Skeletal Muscle Female	skeletal muscle
46	chr7:101538600-101543400	Enhancers	Fetal Muscle Leg	muscle
47	chr7:101538800-101541400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
48	chr7:101538800-101541400	Enhancers	Fetal Thymus	thymus
49	chr7:101539200-101541200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr7:101539200-101543200	Enhancers	Psoas Muscle	Psoas

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