Variant report

Variant	rs6899699
Chromosome Location	chr6:16685421-16685422
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:16682591..16685553-chr6:16759486..16763213,7	MCF-7	breast:
2	chr6:16676300..16679120-chr6:16683349..16685798,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000229931	Chromatin interaction
ENSG00000124788	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs6921486	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9370919	1.00[YRI][hapmap]
rs9396704	1.00[YRI][hapmap]
rs9396705	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532022	chr6:16448152-16825567	ZNF genes & repeats Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1031423	chr6:16467215-16823725	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv1015992	chr6:16469059-16846847	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv538148	chr6:16469059-16846847	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:16662200-16699600	Weak transcription	Fetal Intestine Large	intestine
2	chr6:16662400-16699600	Weak transcription	Fetal Intestine Small	intestine
3	chr6:16671400-16694800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr6:16671800-16687600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr6:16672600-16685600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr6:16673200-16700400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr6:16678000-16687000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr6:16678000-16687600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr6:16678000-16700400	Weak transcription	Ovary	ovary
10	chr6:16680400-16686000	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr6:16680800-16686000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr6:16680800-16686000	Enhancers	HMEC	breast
13	chr6:16681200-16685800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr6:16681800-16693000	Weak transcription	Gastric	stomach
15	chr6:16682200-16685600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr6:16682800-16685600	Enhancers	Fetal Heart	heart
17	chr6:16682800-16685800	Enhancers	Primary B cells from cord blood	blood
18	chr6:16682800-16687200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr6:16683000-16685800	Enhancers	NHDF-Ad	bronchial
20	chr6:16683000-16686000	Enhancers	Primary hematopoietic stem cells	blood
21	chr6:16683200-16686000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr6:16683400-16685800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr6:16683400-16685800	Enhancers	Primary B cells from peripheral blood	blood
24	chr6:16683400-16685800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr6:16683400-16685800	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr6:16683400-16685800	Enhancers	HSMM	muscle
27	chr6:16683400-16687400	Enhancers	Primary T helper cells PMA-I stimulated	--
28	chr6:16683400-16688800	Enhancers	Primary hematopoietic stem cells short term culture	blood
29	chr6:16683600-16685600	Enhancers	Adipose Nuclei	Adipose
30	chr6:16683600-16685800	Enhancers	Brain Anterior Caudate	brain
31	chr6:16683600-16685800	Enhancers	Small Intestine	intestine
32	chr6:16683600-16691200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
33	chr6:16683800-16685600	Enhancers	HSMMtube	muscle
34	chr6:16683800-16685800	Enhancers	Primary T cells fromperipheralblood	blood
35	chr6:16683800-16685800	Enhancers	Psoas Muscle	Psoas
36	chr6:16683800-16685800	Enhancers	Stomach Mucosa	stomach
37	chr6:16683800-16686200	Enhancers	Primary T helper naive cells from peripheral blood	blood
38	chr6:16683800-16686600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
39	chr6:16683800-16687600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
40	chr6:16684000-16685600	Enhancers	Fetal Lung	lung
41	chr6:16684000-16685800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr6:16684000-16685800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr6:16684000-16685800	Enhancers	Sigmoid Colon	Sigmoid Colon
44	chr6:16684000-16685800	Enhancers	NHLF	lung
45	chr6:16684200-16685800	Enhancers	Breast Myoepithelial Primary Cells	Breast
46	chr6:16684200-16685800	Enhancers	Primary T helper cells fromperipheralblood	blood
47	chr6:16684200-16685800	Enhancers	Fetal Thymus	thymus
48	chr6:16684200-16686000	Enhancers	Osteobl	bone
49	chr6:16684200-16686200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr6:16684200-16690400	Weak transcription	Esophagus	oesophagus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links