Variant report

Variant	rs6789306
Chromosome Location	chr3:150461224-150461225
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:150454158..150457474-chr3:150459576..150462833,6	K562	blood:
2	chr3:150450032..150453638-chr3:150459386..150463898,4	K562	blood:
3	chr3:150457697..150460928-chr3:150461063..150463288,3	K562	blood:
4	chr3:150457190..150462784-chr3:150464439..150467778,5	K562	blood:
5	chr3:150460997..150463769-chr3:150468534..150470874,2	K562	blood:
6	chr3:150451497..150454639-chr3:150460793..150463672,3	MCF-7	breast:

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10513377	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs1148368	0.81[ASN][1000 genomes]
rs12695960	0.87[ASN][1000 genomes]
rs1444197	1.00[CEU][hapmap]
rs1533711	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16862837	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16862842	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs1879420	1.00[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs1879421	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1879422	0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1991781	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2014279	1.00[CEU][hapmap]
rs2018246	1.00[CEU][hapmap];0.84[JPT][hapmap];0.82[ASN][1000 genomes]
rs2116684	1.00[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap]
rs2116685	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2166061	0.88[EUR][1000 genomes]
rs34348847	1.00[CEU][hapmap]
rs3851356	1.00[CEU][hapmap]
rs41372346	1.00[CEU][hapmap]
rs41454348	1.00[CEU][hapmap]
rs476663	0.81[JPT][hapmap]
rs481236	1.00[CHB][hapmap];0.95[JPT][hapmap];0.98[ASN][1000 genomes]
rs502941	0.95[CHB][hapmap];0.95[JPT][hapmap];0.98[ASN][1000 genomes]
rs55899470	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57275328	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57824095	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs594926	0.95[CHB][hapmap];0.95[JPT][hapmap];0.98[ASN][1000 genomes]
rs6440697	1.00[CEU][hapmap]
rs6788895	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6805481	1.00[CEU][hapmap]
rs73006998	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73006999	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73008903	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73008905	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73008907	0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73010930	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7615125	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7615292	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7617507	1.00[CEU][hapmap]
rs7628481	1.00[CEU][hapmap]
rs7628776	1.00[CEU][hapmap]
rs7636866	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs939476	0.86[CHB][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:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150451400-150461400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:150451800-150462400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr3:150453800-150478000	Weak transcription	Brain Germinal Matrix	brain
4	chr3:150454600-150469800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr3:150454600-150477200	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr3:150454800-150462600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr3:150454800-150467200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr3:150456400-150461600	Weak transcription	Psoas Muscle	Psoas
9	chr3:150456400-150477600	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr3:150456600-150477600	Weak transcription	Fetal Brain Male	brain
11	chr3:150456800-150461600	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr3:150456800-150462400	Weak transcription	Small Intestine	intestine
13	chr3:150456800-150477400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr3:150457000-150461400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr3:150457000-150461400	Weak transcription	Rectal Smooth Muscle	rectum
16	chr3:150457000-150478800	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr3:150457600-150477600	Weak transcription	HUVEC	blood vessel
18	chr3:150458000-150461400	Strong transcription	Fetal Intestine Small	intestine
19	chr3:150458200-150466000	Weak transcription	Fetal Kidney	kidney
20	chr3:150458200-150469600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr3:150458400-150471600	Genic enhancers	HepG2	liver
22	chr3:150458600-150467400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
23	chr3:150458800-150461600	Strong transcription	Primary T cells from cord blood	blood
24	chr3:150458800-150464400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
25	chr3:150458800-150466200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
26	chr3:150458800-150469400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr3:150459000-150463600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr3:150459000-150477600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr3:150459200-150461600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr3:150459200-150461600	Genic enhancers	GM12878-XiMat	blood
31	chr3:150459400-150468400	Genic enhancers	Primary T helper cells PMA-I stimulated	--
32	chr3:150459800-150461400	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
33	chr3:150460200-150462600	Weak transcription	Fetal Brain Female	brain
34	chr3:150460200-150477600	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr3:150460400-150461400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr3:150460400-150461400	Weak transcription	Brain Substantia Nigra	brain
37	chr3:150460400-150461400	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr3:150460400-150461400	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr3:150460400-150462000	Weak transcription	Aorta	Aorta
40	chr3:150460400-150462000	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr3:150460400-150462400	Weak transcription	Brain Angular Gyrus	brain
42	chr3:150460400-150462400	Weak transcription	Brain Anterior Caudate	brain
43	chr3:150460400-150462400	Weak transcription	Brain Cingulate Gyrus	brain
44	chr3:150460400-150462400	Weak transcription	Fetal Intestine Large	intestine
45	chr3:150460400-150462400	Weak transcription	Gastric	stomach
46	chr3:150460400-150462600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr3:150460400-150463200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr3:150460400-150463200	Enhancers	Primary B cells from peripheral blood	blood
49	chr3:150460400-150463200	Enhancers	Sigmoid Colon	Sigmoid Colon
50	chr3:150460400-150465200	Weak transcription	Primary neutrophils fromperipheralblood	blood

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