Variant report

Variant	rs10259674
Chromosome Location	chr7:33418481-33418482
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:33417630..33419879-chr7:33421037..33423794,2	K562	blood:

Variant related genes	Relation type
ENSG00000122507	Chromatin interaction

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10230991	1.00[YRI][hapmap]
rs10235943	1.00[YRI][hapmap]
rs10236358	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs10239609	1.00[YRI][hapmap]
rs10243590	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs10245418	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10250312	1.00[YRI][hapmap]
rs10252552	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10252927	1.00[YRI][hapmap]
rs10252935	1.00[YRI][hapmap]
rs10253352	1.00[YRI][hapmap]
rs10253574	1.00[YRI][hapmap]
rs10257379	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs10259513	1.00[YRI][hapmap]
rs10266641	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs10267370	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10270137	0.83[AFR][1000 genomes]
rs10272446	0.83[AFR][1000 genomes]
rs10276929	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10951385	1.00[YRI][hapmap]
rs12333380	1.00[YRI][hapmap]
rs12334131	1.00[YRI][hapmap]
rs12666595	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12666825	0.98[ASN][1000 genomes]
rs12666901	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12666955	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12666965	0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs12667607	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12668060	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12669011	0.82[AMR][1000 genomes]
rs12669172	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12669656	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12669847	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12669848	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12670789	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12671882	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12672071	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12672496	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12673004	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17170181	0.84[JPT][hapmap];0.91[AMR][1000 genomes]
rs17170182	0.91[AMR][1000 genomes]
rs17170255	1.00[JPT][hapmap]
rs28465518	0.83[AFR][1000 genomes]
rs28478218	0.83[AFR][1000 genomes]
rs28564487	0.83[AFR][1000 genomes]
rs28622379	0.83[AFR][1000 genomes]
rs3779240	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4298411	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs57415509	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58749439	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58949565	0.82[AMR][1000 genomes]
rs60809075	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60878395	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6462471	1.00[JPT][hapmap]
rs6969260	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6974593	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9785054	1.00[YRI][hapmap]

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	nsv606610	chr7:33218763-33486316	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1016416	chr7:33241443-33559477	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv916660	chr7:33272493-33506384	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv830944	chr7:33389892-33549882	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:33355200-33419600	Weak transcription	Primary T cells from cord blood	blood
2	chr7:33384000-33425400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr7:33387000-33425200	Weak transcription	Primary T cells fromperipheralblood	blood
4	chr7:33389000-33437400	Weak transcription	Liver	Liver
5	chr7:33392600-33423000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr7:33393600-33419600	Weak transcription	Rectal Smooth Muscle	rectum
7	chr7:33394200-33419400	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr7:33394200-33419600	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr7:33394400-33427800	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr7:33396600-33420000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr7:33396600-33422000	Weak transcription	Small Intestine	intestine
12	chr7:33402600-33419600	Weak transcription	Brain Cingulate Gyrus	brain
13	chr7:33403000-33427400	Weak transcription	Primary T helper cells PMA-I stimulated	--
14	chr7:33403400-33437800	Weak transcription	Brain Substantia Nigra	brain
15	chr7:33403800-33419600	Weak transcription	Brain Angular Gyrus	brain
16	chr7:33403800-33430400	Weak transcription	Brain Hippocampus Middle	brain
17	chr7:33404000-33419800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr7:33404000-33433000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr7:33404600-33419600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr7:33404600-33419600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr7:33404800-33419600	Weak transcription	Right Ventricle	heart
22	chr7:33405200-33420000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr7:33405200-33421600	Weak transcription	Colon Smooth Muscle	Colon
24	chr7:33405400-33422200	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr7:33405600-33419600	Weak transcription	Fetal Muscle Trunk	muscle
26	chr7:33405600-33423600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr7:33405800-33419600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr7:33405800-33419600	Weak transcription	Stomach Smooth Muscle	stomach
29	chr7:33406000-33419400	Weak transcription	Left Ventricle	heart
30	chr7:33406000-33419600	Weak transcription	Brain Anterior Caudate	brain
31	chr7:33406000-33419600	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr7:33406000-33419600	Weak transcription	Fetal Stomach	stomach
33	chr7:33406000-33419800	Weak transcription	Fetal Lung	lung
34	chr7:33406000-33425400	Weak transcription	Primary B cells from cord blood	blood
35	chr7:33406400-33425400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr7:33407000-33429600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr7:33407200-33419400	Weak transcription	Fetal Heart	heart
38	chr7:33408200-33431000	Weak transcription	Primary hematopoietic stem cells	blood
39	chr7:33408200-33434600	Weak transcription	HUES48 Cell Line	embryonic stem cell
40	chr7:33408600-33434400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr7:33411800-33431000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr7:33412000-33423800	Weak transcription	Stomach Mucosa	stomach
43	chr7:33412200-33433200	Weak transcription	Psoas Muscle	Psoas
44	chr7:33413400-33424400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr7:33413600-33423400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr7:33413800-33419600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
47	chr7:33413800-33419600	Weak transcription	Pancreas	Pancrea
48	chr7:33414000-33419400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr7:33416400-33421800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr7:33416800-33419800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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