Variant report

Variant	rs6440688
Chromosome Location	chr3:150353177-150353178
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:150337611..150339183-chr3:150352159..150354463,2	K562	blood:
2	chr3:150348263..150349898-chr3:150352645..150354743,2	MCF-7	breast:
3	chr3:150264699..150266446-chr3:150353006..150354618,2	K562	blood:
4	chr3:150343253..150346075-chr3:150351580..150353875,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198843	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs13071114	0.96[YRI][hapmap]
rs16862785	0.93[CEU][hapmap];0.88[YRI][hapmap];0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2090916	0.81[LWK][hapmap];0.96[YRI][hapmap]
rs6440685	0.96[YRI][hapmap]
rs6790726	0.81[YRI][hapmap]
rs6798173	0.81[YRI][hapmap]
rs73869256	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7620249	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7631671	0.80[LWK][hapmap];0.96[YRI][hapmap]
rs8052	0.81[LWK][hapmap];0.96[YRI][hapmap]

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	nsv532662	chr3:150180747-150633414	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150330000-150356600	Weak transcription	Gastric	stomach
2	chr3:150342600-150353200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr3:150344400-150353800	Weak transcription	Brain Angular Gyrus	brain
4	chr3:150344600-150353200	Weak transcription	Brain Germinal Matrix	brain
5	chr3:150344800-150353200	Weak transcription	Colon Smooth Muscle	Colon
6	chr3:150345000-150354000	Weak transcription	Esophagus	oesophagus
7	chr3:150345600-150353200	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr3:150345600-150353200	Weak transcription	NHDF-Ad	bronchial
9	chr3:150345800-150353200	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr3:150345800-150353200	Weak transcription	Fetal Kidney	kidney
11	chr3:150345800-150359400	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr3:150347000-150353200	Weak transcription	Primary B cells from cord blood	blood
13	chr3:150348800-150354200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr3:150349000-150353200	Weak transcription	Adipose Nuclei	Adipose
15	chr3:150349400-150353200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr3:150349600-150356000	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr3:150349800-150353200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr3:150349800-150353200	Weak transcription	Primary T cells from cord blood	blood
19	chr3:150349800-150353200	Weak transcription	NH-A	brain
20	chr3:150349800-150353400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr3:150349800-150353800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr3:150352200-150353600	Enhancers	Dnd41	blood
23	chr3:150352200-150354400	Enhancers	Cortex derived primary cultured neurospheres	brain
24	chr3:150352200-150354800	Enhancers	Primary T helper cells fromperipheralblood	blood
25	chr3:150352800-150353200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr3:150352800-150353200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
27	chr3:150352800-150353200	Active TSS	Brain Anterior Caudate	brain
28	chr3:150352800-150353400	Enhancers	HUES6 Cell Line	embryonic stem cell
29	chr3:150352800-150353600	Enhancers	iPS-15b Cell Line	embryonic stem cell
30	chr3:150352800-150353800	Enhancers	ES-I3 Cell Line	embryonic stem cell
31	chr3:150352800-150353800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr3:150352800-150353800	Enhancers	Primary B cells from peripheral blood	blood
33	chr3:150352800-150353800	Enhancers	GM12878-XiMat	blood
34	chr3:150352800-150354000	Enhancers	HUES64 Cell Line	embryonic stem cell
35	chr3:150352800-150354000	Enhancers	iPS-18 Cell Line	embryonic stem cell
36	chr3:150352800-150354000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr3:150352800-150354000	Enhancers	Brain Substantia Nigra	brain
38	chr3:150352800-150354000	Enhancers	K562	blood
39	chr3:150352800-150354200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
40	chr3:150352800-150354200	Enhancers	Primary T helper cells PMA-I stimulated	--
41	chr3:150352800-150354200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr3:150352800-150354200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr3:150352800-150354400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr3:150352800-150354400	Enhancers	Fetal Thymus	thymus
45	chr3:150352800-150354400	Enhancers	Thymus	Thymus
46	chr3:150352800-150354600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
47	chr3:150352800-150354800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
48	chr3:150352800-150354800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
49	chr3:150352800-150355200	Enhancers	Primary T cells fromperipheralblood	blood
50	chr3:150352800-150355200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood

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