Variant report

Variant	rs7907260
Chromosome Location	chr10:52302430-52302431
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:52293246..52296190-chr10:52300383..52302951,2	K562	blood:

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs1010930	0.98[ASN][1000 genomes]
rs10763535	0.94[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.88[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10763550	0.95[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs10763560	0.90[CHB][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs10763566	0.95[CHB][hapmap];0.86[JPT][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs10826149	0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs10826155	0.96[ASN][1000 genomes]
rs10826159	0.97[ASN][1000 genomes]
rs10826160	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10826161	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];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10826163	0.98[ASN][1000 genomes]
rs10826164	0.98[ASN][1000 genomes]
rs10826165	0.98[ASN][1000 genomes]
rs10826166	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10826167	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10826169	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10826170	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10826228	0.87[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs11005579	0.93[CEU][hapmap]
rs11006054	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11006075	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11006084	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];0.95[ASN][1000 genomes]
rs11006114	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11006118	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11006141	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs11006160	0.87[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs11006201	0.85[ASN][1000 genomes]
rs11006217	0.90[CHB][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs12219692	0.94[CEU][hapmap];0.89[EUR][1000 genomes]
rs12415817	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12415836	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12572387	0.95[CHB][hapmap];0.87[JPT][hapmap];0.87[ASN][1000 genomes]
rs1884570	0.98[ASN][1000 genomes]
rs2024872	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2144861	1.00[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.81[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2224249	0.90[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs3011777	0.91[CHB][hapmap];0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs34659292	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs36122110	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4935173	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4935174	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4935728	0.80[EUR][1000 genomes]
rs4935733	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7074764	0.95[CHB][hapmap];0.87[JPT][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs7078284	0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs7088141	0.95[CHB][hapmap];0.87[JPT][hapmap];0.90[YRI][hapmap];0.82[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs7094143	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7893884	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7900424	0.90[CHB][hapmap];0.87[JPT][hapmap];0.87[ASN][1000 genomes]
rs7915606	0.91[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs7916397	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9299582	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9919413	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054775	chr10:51595893-52392361	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1051087	chr10:51886486-52447295	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv916214	chr10:51886486-52458983	Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv918212	chr10:51886486-52465482	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv817412	chr10:51911034-52432990	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
6	nsv469522	chr10:52276564-52447589	Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
7	nsv482564	chr10:52276564-52447589	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52272600-52302800	Weak transcription	Fetal Stomach	stomach
2	chr10:52280200-52328000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr10:52286400-52304000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr10:52287800-52302800	Weak transcription	Primary hematopoietic stem cells	blood
5	chr10:52296800-52302800	Weak transcription	Rectal Smooth Muscle	rectum
6	chr10:52296800-52306000	Enhancers	Primary T helper cells PMA-I stimulated	--
7	chr10:52297000-52302800	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr10:52297000-52304400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr10:52297000-52304600	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr10:52297400-52306000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
11	chr10:52297800-52302800	Weak transcription	Thymus	Thymus
12	chr10:52298400-52303400	Enhancers	Primary B cells from peripheral blood	blood
13	chr10:52299000-52302800	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr10:52299000-52303600	Enhancers	Brain Hippocampus Middle	brain
15	chr10:52299000-52304000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr10:52299000-52304400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr10:52299000-52305400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr10:52299000-52305400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr10:52299000-52310200	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr10:52299200-52302600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr10:52299200-52302600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr10:52299200-52302600	Weak transcription	Spleen	Spleen
23	chr10:52299200-52302800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr10:52299200-52302800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr10:52299200-52302800	Weak transcription	Stomach Mucosa	stomach
26	chr10:52299200-52304000	Weak transcription	Fetal Intestine Small	intestine
27	chr10:52299200-52304600	Weak transcription	Duodenum Mucosa	Duodenum
28	chr10:52299200-52305800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
29	chr10:52299200-52310200	Weak transcription	Pancreas	Pancrea
30	chr10:52299400-52302800	Enhancers	K562	blood
31	chr10:52299600-52320600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr10:52300200-52305000	Weak transcription	HepG2	liver
33	chr10:52300400-52302600	Weak transcription	Brain Angular Gyrus	brain
34	chr10:52300600-52302800	Weak transcription	Small Intestine	intestine
35	chr10:52300600-52303200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr10:52300600-52310200	Weak transcription	Placenta	Placenta
37	chr10:52300800-52302600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr10:52300800-52302800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
39	chr10:52300800-52302800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
40	chr10:52300800-52302800	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr10:52300800-52304600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr10:52300800-52304800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
43	chr10:52300800-52310800	Weak transcription	Gastric	stomach
44	chr10:52300800-52322800	Weak transcription	Primary B cells from cord blood	blood
45	chr10:52301200-52303400	Weak transcription	Pancreatic Islets	Pancreatic Islet
46	chr10:52301400-52302600	Weak transcription	Liver	Liver
47	chr10:52301400-52302600	Weak transcription	Right Atrium	heart
48	chr10:52301400-52304000	Weak transcription	Right Ventricle	heart
49	chr10:52301400-52304800	Weak transcription	Psoas Muscle	Psoas
50	chr10:52301400-52306000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood

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