Variant report

Variant	rs13219868
Chromosome Location	chr6:149686518-149686519
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:149686002..149687891-chr6:149690024..149692484,2	MCF-7	breast:
2	chr6:149686121..149688325-chr6:149693072..149695874,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000055208	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11155639	0.82[CEU][hapmap];0.81[JPT][hapmap];0.81[EUR][1000 genomes]
rs11155641	0.96[CEU][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11155644	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11964335	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12110411	0.83[YRI][hapmap]
rs1446556	0.82[CEU][hapmap]
rs1626823	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1900300	0.96[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs237009	0.80[EUR][1000 genomes]
rs237010	0.89[CEU][hapmap];0.80[EUR][1000 genomes]
rs237012	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.92[AFR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs237016	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs237018	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs237019	0.82[JPT][hapmap];0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs237024	1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs237025	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs237026	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs237028	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs237029	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs237034	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs237035	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs366905	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs372205	0.88[CEU][hapmap]
rs4895787	0.96[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6570963	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6570964	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6906384	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6922130	0.82[CEU][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6942381	0.83[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7752555	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7753269	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs805026	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024106	chr6:149622349-149745053	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv522875	chr6:149643709-149762537	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv530444	chr6:149654540-149848997	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149649400-149689400	Weak transcription	Fetal Brain Female	brain
2	chr6:149656800-149694400	Weak transcription	Placenta	Placenta
3	chr6:149657800-149691200	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr6:149658000-149695400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr6:149658200-149691000	Weak transcription	NHDF-Ad	bronchial
6	chr6:149658800-149692400	Weak transcription	Fetal Kidney	kidney
7	chr6:149659200-149691400	Weak transcription	Fetal Muscle Trunk	muscle
8	chr6:149660400-149699200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr6:149662200-149694800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr6:149664000-149687400	Weak transcription	HSMM	muscle
11	chr6:149664000-149694400	Weak transcription	Duodenum Mucosa	Duodenum
12	chr6:149664600-149687400	Weak transcription	Right Ventricle	heart
13	chr6:149667600-149691000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr6:149669400-149690400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
15	chr6:149672400-149686800	Weak transcription	Primary B cells from peripheral blood	blood
16	chr6:149674200-149691000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr6:149674600-149691800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr6:149674600-149699200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr6:149674600-149699200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr6:149674600-149699200	Weak transcription	Fetal Intestine Large	intestine
21	chr6:149677400-149692400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr6:149677800-149687400	Weak transcription	Aorta	Aorta
23	chr6:149677800-149699200	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr6:149680000-149692400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr6:149680000-149699200	Weak transcription	Fetal Brain Male	brain
26	chr6:149680600-149687400	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr6:149680800-149687400	Weak transcription	Primary B cells from cord blood	blood
28	chr6:149681000-149694800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr6:149681200-149699200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr6:149681600-149691000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr6:149681600-149691600	Weak transcription	Primary monocytes fromperipheralblood	blood
32	chr6:149681800-149695000	Weak transcription	Adipose Nuclei	Adipose
33	chr6:149681800-149699200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr6:149682000-149687400	Weak transcription	Thymus	Thymus
35	chr6:149682000-149691000	Weak transcription	Monocytes-CD14+_RO01746	blood
36	chr6:149682200-149691200	Weak transcription	Primary neutrophils fromperipheralblood	blood
37	chr6:149682600-149699200	Weak transcription	Esophagus	oesophagus
38	chr6:149682600-149699200	Weak transcription	Spleen	Spleen
39	chr6:149682600-149709200	Weak transcription	Psoas Muscle	Psoas
40	chr6:149682800-149691000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr6:149682800-149691000	Weak transcription	Left Ventricle	heart
42	chr6:149682800-149692400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr6:149682800-149699200	Weak transcription	Lung	lung
44	chr6:149683000-149686800	Weak transcription	Fetal Thymus	thymus
45	chr6:149683200-149687000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
46	chr6:149683200-149687400	Enhancers	Primary T helper cells fromperipheralblood	blood
47	chr6:149683200-149691200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
48	chr6:149683400-149687400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
49	chr6:149683400-149687400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
50	chr6:149683400-149687600	Enhancers	Primary T killer memory cells from peripheral blood	blood

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