Variant report

Variant	rs28419471
Chromosome Location	chr7:21547690-21547691
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:21332671..21333636-chr7:21547000..21547910,2	K562	blood:
2	chr7:21301064..21301973-chr7:21546939..21548177,8	MCF-7	breast:
3	chr7:21295558..21297041-chr7:21546961..21547892,8	MCF-7	breast:
4	chr7:21398064..21400234-chr7:21547452..21549542,2	K562	blood:
5	chr7:21300753..21302511-chr7:21546076..21548504,2	MCF-7	breast:
6	chr7:21301025..21301755-chr7:21547265..21547880,2	MCF-7	breast:
7	chr7:21547043..21547991-chr7:21806813..21807569,3	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10216269	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10228982	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10233925	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10234687	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10235230	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10238881	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10250403	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10250517	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10253281	1.00[EUR][1000 genomes]
rs10254442	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10254858	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10255890	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10258911	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10259756	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10268107	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10271650	0.80[AFR][1000 genomes]
rs10274755	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10275955	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12674126	1.00[AMR][1000 genomes]
rs2158415	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2285941	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28490171	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28528275	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28580454	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28657649	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28661383	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28666837	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55840028	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55879742	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55908918	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57142662	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs57213984	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58025439	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs58223300	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61043546	0.92[AFR][1000 genomes]
rs6946711	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6947378	0.91[AFR][1000 genomes]
rs6953601	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6972886	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6973902	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73682608	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73685128	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73685129	0.85[AFR][1000 genomes]
rs73685130	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73685131	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73685134	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73685135	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73685138	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73685141	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73685144	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73685152	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73685154	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73685156	0.80[AFR][1000 genomes]
rs7792713	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027302	chr7:21391598-21727016	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv538800	chr7:21391598-21727016	Enhancers Genic enhancers Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1028434	chr7:21468437-21636671	ZNF genes & repeats Strong transcription Bivalent/Poised TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv1023655	chr7:21486485-21727016	Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv538801	chr7:21486485-21727016	ZNF genes & repeats Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv830921	chr7:21489100-21688016	Strong transcription ZNF genes & repeats Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:21487400-21557000	Weak transcription	Aorta	Aorta
2	chr7:21500000-21552800	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr7:21516200-21556400	Weak transcription	Brain Substantia Nigra	brain
4	chr7:21517000-21556000	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr7:21520800-21552800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr7:21521200-21552600	Weak transcription	Brain Angular Gyrus	brain
7	chr7:21533400-21550400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr7:21533600-21549800	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr7:21536600-21549400	Weak transcription	Left Ventricle	heart
10	chr7:21536600-21550000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr7:21536600-21550600	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr7:21536600-21557000	Weak transcription	Psoas Muscle	Psoas
13	chr7:21536800-21550800	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr7:21536800-21550800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr7:21536800-21552800	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr7:21537000-21547800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr7:21537400-21549000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr7:21538800-21555000	Weak transcription	Brain Cingulate Gyrus	brain
19	chr7:21539200-21552600	Weak transcription	Stomach Smooth Muscle	stomach
20	chr7:21539600-21554800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr7:21539600-21555800	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr7:21539800-21551600	Strong transcription	Primary B cells from cord blood	blood
23	chr7:21540600-21550800	Weak transcription	Fetal Lung	lung
24	chr7:21540600-21551600	Weak transcription	Primary neutrophils fromperipheralblood	blood
25	chr7:21540600-21554400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr7:21540800-21551400	Weak transcription	Brain Anterior Caudate	brain
27	chr7:21541000-21554800	Weak transcription	Lung	lung
28	chr7:21541600-21547800	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
29	chr7:21542000-21551200	Weak transcription	Fetal Kidney	kidney
30	chr7:21542200-21548200	Weak transcription	Fetal Muscle Trunk	muscle
31	chr7:21542200-21552200	Weak transcription	Adipose Nuclei	Adipose
32	chr7:21543400-21548000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr7:21544000-21548200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr7:21544200-21550200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr7:21544600-21549400	Weak transcription	Pancreas	Pancrea
36	chr7:21545000-21550400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
37	chr7:21545200-21549400	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
38	chr7:21545400-21550600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr7:21545400-21552600	Strong transcription	Primary T helper cells fromperipheralblood	blood
40	chr7:21545800-21549600	ZNF genes & repeats	Dnd41	blood
41	chr7:21545800-21550400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
42	chr7:21546000-21552200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr7:21546200-21548800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
44	chr7:21546200-21550600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr7:21546200-21552000	Strong transcription	Primary T cells fromperipheralblood	blood
46	chr7:21546800-21548000	Strong transcription	Primary T helper naive cells from peripheral blood	blood
47	chr7:21546800-21548400	ZNF genes & repeats	Fetal Brain Female	brain
48	chr7:21546800-21548600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr7:21546800-21550800	Weak transcription	HUES6 Cell Line	embryonic stem cell
50	chr7:21546800-21553800	Strong transcription	Primary B cells from peripheral blood	blood

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