Variant report

Variant	rs6776336
Chromosome Location	chr3:143573252-143573253
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:29692522..29694043-chr3:143572695..143574216,2	MCF-7	breast:
2	chr3:143572714..143574427-chr3:143574833..143577632,2	K562	blood:

Variant related genes	Relation type
ENSG00000235110	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10433437	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12497227	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1394403	1.00[CEU][hapmap];0.90[CHB][hapmap];0.85[EUR][1000 genomes]
rs16854417	0.90[CHB][hapmap]
rs16854421	0.90[CHB][hapmap]
rs16854423	0.90[CHB][hapmap]
rs16854424	0.90[CHB][hapmap]
rs16854463	0.90[CHB][hapmap]
rs16854493	0.90[CHB][hapmap]
rs16854503	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.97[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs16854525	0.90[CHB][hapmap]
rs1823220	0.90[CHB][hapmap]
rs1900643	0.82[CEU][hapmap];1.00[CHB][hapmap];0.80[YRI][hapmap];0.82[AMR][1000 genomes]
rs1989180	0.82[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes]
rs2134913	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2361199	0.90[CHB][hapmap]
rs2361204	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4839613	1.00[CEU][hapmap]
rs4839614	1.00[CEU][hapmap];0.90[CHB][hapmap]
rs4839659	0.90[CHB][hapmap]
rs4839660	0.90[CHB][hapmap]
rs4839661	0.90[CHB][hapmap]
rs4839663	0.90[CHB][hapmap]
rs4839670	1.00[CHB][hapmap];0.92[AMR][1000 genomes]
rs6763660	0.82[CHB][hapmap]
rs6764661	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];1.00[ASN][1000 genomes]
rs6765414	1.00[CEU][hapmap];0.90[CHB][hapmap]
rs6769847	0.90[CHB][hapmap]
rs6792031	0.90[CHB][hapmap]
rs6804065	0.90[CHB][hapmap]
rs7621206	1.00[CHB][hapmap]
rs7651412	0.90[CHB][hapmap];0.85[AMR][1000 genomes]
rs7652644	0.90[CHB][hapmap]
rs9822158	0.90[CHB][hapmap]
rs9827103	1.00[CHB][hapmap];0.85[AMR][1000 genomes]
rs9832471	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9847107	1.00[CHB][hapmap];0.80[AMR][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	nsv1009935	chr3:143497700-143610852	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143569200-143573800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr3:143569600-143574000	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr3:143569600-143574000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr3:143569600-143574000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr3:143570600-143573400	Weak transcription	Fetal Thymus	thymus
6	chr3:143571000-143574000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:143572400-143574600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr3:143572600-143574600	Enhancers	Primary T cells from cord blood	blood
9	chr3:143572800-143574600	Enhancers	Primary T helper cells fromperipheralblood	blood
10	chr3:143572800-143574800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr3:143573000-143574600	Enhancers	Primary T helper naive cells from peripheral blood	blood
12	chr3:143573000-143574600	Enhancers	Primary T helper cells PMA-I stimulated	--
13	chr3:143573200-143574600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
14	chr3:143573200-143574600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--

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