Variant report

Variant	rs1535602
Chromosome Location	chr6:16688250-16688251
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	chr6:16685801..16692739-chr6:16758144..16765867,9	MCF-7	breast:
2	chr6:16686617..16690881-chr6:16767347..16770603,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000229931	Chromatin interaction
ENSG00000124788	Chromatin interaction
ENSG00000272341	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs17667167	1.00[ASN][1000 genomes]
rs17669102	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2327995	1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

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:92 , 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	chr6:16673200-16700400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr6:16678000-16700400	Weak transcription	Ovary	ovary
6	chr6:16681800-16693000	Weak transcription	Gastric	stomach
7	chr6:16683400-16688800	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr6:16683600-16691200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
9	chr6:16684200-16690400	Weak transcription	Esophagus	oesophagus
10	chr6:16684400-16689000	Weak transcription	Brain Angular Gyrus	brain
11	chr6:16684400-16693000	Weak transcription	Spleen	Spleen
12	chr6:16684400-16695200	Weak transcription	Fetal Muscle Leg	muscle
13	chr6:16684600-16695000	Weak transcription	Right Ventricle	heart
14	chr6:16684800-16688600	Weak transcription	HUVEC	blood vessel
15	chr6:16684800-16689000	Weak transcription	Thymus	Thymus
16	chr6:16684800-16690400	Weak transcription	Brain Hippocampus Middle	brain
17	chr6:16684800-16691000	Weak transcription	Lung	lung
18	chr6:16684800-16698000	Weak transcription	Fetal Stomach	stomach
19	chr6:16685000-16700800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr6:16685400-16695000	Weak transcription	Right Atrium	heart
21	chr6:16685400-16697800	Weak transcription	Liver	Liver
22	chr6:16685600-16688600	Weak transcription	Adipose Nuclei	Adipose
23	chr6:16685600-16688800	Weak transcription	HSMMtube	muscle
24	chr6:16685600-16689200	Weak transcription	Left Ventricle	heart
25	chr6:16685600-16691000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr6:16685600-16691200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr6:16685600-16697800	Weak transcription	Fetal Lung	lung
28	chr6:16685600-16699800	Weak transcription	Primary T cells from cord blood	blood
29	chr6:16685800-16688600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr6:16685800-16688600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
31	chr6:16685800-16688600	Weak transcription	NH-A	brain
32	chr6:16685800-16688800	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr6:16685800-16688800	Weak transcription	HSMM	muscle
34	chr6:16685800-16689000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr6:16685800-16689000	Weak transcription	Hela-S3	cervix
36	chr6:16685800-16690400	Weak transcription	Primary B cells from peripheral blood	blood
37	chr6:16685800-16690400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr6:16685800-16690600	Weak transcription	Small Intestine	intestine
39	chr6:16685800-16695200	Weak transcription	Psoas Muscle	Psoas
40	chr6:16686000-16688400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr6:16686000-16688400	Weak transcription	HMEC	breast
42	chr6:16686000-16688600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr6:16686000-16688600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr6:16686000-16688600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr6:16686000-16688600	Weak transcription	Osteobl	bone
46	chr6:16686000-16690400	Weak transcription	HUES6 Cell Line	embryonic stem cell
47	chr6:16686000-16691000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
48	chr6:16686000-16691000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr6:16686200-16688400	Weak transcription	NHEK	skin
50	chr6:16686200-16688600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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