Variant report

Variant	rs16871294
Chromosome Location	chr6:11381583-11381584
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:11229690..11234119-chr6:11380884..11384431,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000111859	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10484453	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];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10484454	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];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12524463	0.88[ASN][1000 genomes]
rs12525329	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12525704	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12525719	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12526759	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];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12527813	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16871291	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16871306	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4607428	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6903648	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs6935901	0.84[YRI][hapmap]
rs73366863	0.96[ASN][1000 genomes]
rs73722961	0.81[ASN][1000 genomes]
rs7742703	0.88[ASN][1000 genomes]
rs7752886	0.88[ASN][1000 genomes]
rs7760294	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs926314	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[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	nsv1021078	chr6:10819083-11558560	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv538135	chr6:10819083-11558560	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv432848	chr6:11371614-11560114	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11374800-11381800	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr6:11374800-11382200	Weak transcription	Small Intestine	intestine
3	chr6:11377800-11386600	Weak transcription	HepG2	liver
4	chr6:11379600-11381600	Weak transcription	Placenta	Placenta
5	chr6:11379600-11382200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:11380000-11381600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
7	chr6:11380000-11383200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
8	chr6:11380200-11381600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
9	chr6:11380200-11382600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr6:11380400-11381600	Enhancers	Primary hematopoietic stem cells short term culture	blood
11	chr6:11380400-11382200	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
12	chr6:11380600-11382200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
13	chr6:11380600-11382400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr6:11380600-11382800	Active TSS	GM12878-XiMat	blood
15	chr6:11380600-11383400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
16	chr6:11380800-11381800	Weak transcription	Lung	lung
17	chr6:11380800-11381800	Enhancers	Placenta Amnion	Placenta Amnion
18	chr6:11380800-11382000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
19	chr6:11380800-11382200	Flanking Active TSS	Primary B cells from peripheral blood	blood
20	chr6:11380800-11382800	Active TSS	Duodenum Mucosa	Duodenum
21	chr6:11381000-11381800	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
22	chr6:11381000-11381800	Weak transcription	Spleen	Spleen
23	chr6:11381000-11382000	Flanking Active TSS	Primary B cells from cord blood	blood
24	chr6:11381000-11382200	Active TSS	Fetal Adrenal Gland	Adrenal Gland
25	chr6:11381000-11382600	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
26	chr6:11381000-11383000	Flanking Active TSS	Primary T cells from cord blood	blood
27	chr6:11381000-11383200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
28	chr6:11381200-11381600	Transcr. at gene 5' and 3'	Primary T cells fromperipheralblood	blood
29	chr6:11381200-11381600	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
30	chr6:11381200-11381600	Flanking Active TSS	Thymus	Thymus
31	chr6:11381200-11382200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
32	chr6:11381200-11382600	Flanking Active TSS	Primary hematopoietic stem cells	blood
33	chr6:11381200-11382600	Active TSS	Rectal Smooth Muscle	rectum
34	chr6:11381200-11382800	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
35	chr6:11381200-11383000	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
36	chr6:11381200-11383200	Flanking Active TSS	Dnd41	blood
37	chr6:11381400-11381800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr6:11381400-11382000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
39	chr6:11381400-11382000	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr6:11381400-11382000	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
41	chr6:11381400-11382200	Enhancers	Left Ventricle	heart
42	chr6:11381400-11382600	Flanking Active TSS	Fetal Thymus	thymus
43	chr6:11381400-11383000	Active TSS	Duodenum Smooth Muscle	Duodenum

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