Variant report

Variant	rs6768652
Chromosome Location	chr3:143308392-143308393
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:143301280..143303910-chr3:143308205..143310957,2	MCF-7	breast:
2	chr3:143300021..143302674-chr3:143306084..143308707,2	K562	blood:

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs16853883	1.00[CEU][hapmap];0.88[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]
rs16853885	1.00[CEU][hapmap];0.88[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]
rs56156039	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58311212	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs60777877	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61084018	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6763357	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6763515	0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs6771178	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6771387	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6776465	1.00[CEU][hapmap];0.86[CHB][hapmap];0.93[JPT][hapmap];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6796090	1.00[CEU][hapmap];0.88[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]
rs6801430	1.00[CEU][hapmap];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6806933	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]
rs6808665	1.00[CEU][hapmap];0.88[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]
rs6808788	1.00[CEU][hapmap];0.88[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]
rs73867678	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73867679	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73867680	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73867683	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv829745	chr3:143278512-143405626	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143277400-143310200	Weak transcription	Primary T helper cells PMA-I stimulated	--
2	chr3:143294400-143317800	Weak transcription	Brain Substantia Nigra	brain
3	chr3:143294800-143309400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:143296200-143313200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr3:143297600-143320000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr3:143297600-143339000	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr3:143298600-143312600	Weak transcription	Gastric	stomach
8	chr3:143300400-143336800	Weak transcription	Primary T cells from cord blood	blood
9	chr3:143302000-143311200	Weak transcription	Placenta	Placenta
10	chr3:143305000-143310600	Weak transcription	Pancreas	Pancrea
11	chr3:143305200-143312600	Weak transcription	Fetal Lung	lung
12	chr3:143305800-143309400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr3:143305800-143309600	Weak transcription	Fetal Intestine Large	intestine
14	chr3:143305800-143309600	Weak transcription	Fetal Intestine Small	intestine
15	chr3:143306000-143309400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr3:143306000-143309400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr3:143306000-143310400	Weak transcription	Stomach Mucosa	stomach
18	chr3:143306000-143314000	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr3:143306200-143310600	Weak transcription	Small Intestine	intestine
20	chr3:143306400-143311000	Weak transcription	Duodenum Mucosa	Duodenum
21	chr3:143307200-143313000	Weak transcription	Fetal Thymus	thymus

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