Variant report

Variant	rs17194055
Chromosome Location	chr6:30036927-30036928
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:30036068..30037732-chr6:30063349..30066200,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs28684426	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28731260	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58154054	0.97[AFR][1000 genomes]
rs60789199	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7754777	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7764464	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9260802	0.83[AFR][1000 genomes]
rs9260811	0.83[AFR][1000 genomes]
rs9295827	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9295831	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9295834	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9295835	1.00[AMR][1000 genomes]
rs9461568	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9468668	1.00[AMR][1000 genomes]
rs9468669	1.00[AMR][1000 genomes]
rs9468671	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9468678	1.00[AMR][1000 genomes]
rs9468679	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9468682	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9468683	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9468687	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9468688	1.00[AMR][1000 genomes]
rs9501012	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9501313	0.87[AFR][1000 genomes];1.00[AMR][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	nsv1031115	chr6:29934199-30058223	Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv538172	chr6:29934199-30058223	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv432866	chr6:30026321-30080921	Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30035600-30037000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:30035600-30037000	Weak transcription	Right Ventricle	heart
3	chr6:30035600-30037200	Weak transcription	Esophagus	oesophagus
4	chr6:30035600-30037200	Weak transcription	Ovary	ovary
5	chr6:30035600-30037800	Weak transcription	Gastric	stomach
6	chr6:30035600-30041000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:30035800-30037400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr6:30035800-30038000	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr6:30035800-30038800	Weak transcription	Right Atrium	heart
10	chr6:30036000-30037000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr6:30036000-30037000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr6:30036000-30037000	Bivalent Enhancer	Fetal Brain Male	brain
13	chr6:30036000-30037000	Weak transcription	GM12878-XiMat	blood
14	chr6:30036000-30037200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr6:30036000-30037200	Weak transcription	Brain Anterior Caudate	brain
16	chr6:30036000-30037200	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr6:30036000-30037400	Weak transcription	NHDF-Ad	bronchial
18	chr6:30036000-30037600	Weak transcription	Fetal Kidney	kidney
19	chr6:30036000-30038000	Weak transcription	Brain Substantia Nigra	brain
20	chr6:30036000-30038200	Weak transcription	HUVEC	blood vessel
21	chr6:30036000-30038600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr6:30036000-30038600	Weak transcription	Primary hematopoietic stem cells	blood
23	chr6:30036000-30038600	Weak transcription	NH-A	brain
24	chr6:30036200-30037000	Weak transcription	Brain Hippocampus Middle	brain
25	chr6:30036200-30037200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr6:30036200-30037200	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr6:30036200-30037200	Genic enhancers	Brain Germinal Matrix	brain
28	chr6:30036200-30037200	Weak transcription	Fetal Lung	lung
29	chr6:30036200-30037600	Strong transcription	Fetal Thymus	thymus
30	chr6:30036200-30038000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr6:30036200-30038200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr6:30036200-30038200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr6:30036200-30038200	Strong transcription	Fetal Muscle Leg	muscle
34	chr6:30036200-30038400	Strong transcription	Fetal Intestine Large	intestine
35	chr6:30036200-30038600	Strong transcription	Thymus	Thymus
36	chr6:30036200-30038800	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr6:30036200-30038800	Strong transcription	Placenta	Placenta
38	chr6:30036200-30039400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr6:30036400-30037000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr6:30036400-30037200	Weak transcription	Duodenum Mucosa	Duodenum
41	chr6:30036400-30037200	Weak transcription	HSMMtube	muscle
42	chr6:30036400-30037400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr6:30036400-30037400	Strong transcription	Monocytes-CD14+_RO01746	blood
44	chr6:30036400-30037600	Strong transcription	Placenta Amnion	Placenta Amnion
45	chr6:30036400-30037800	Weak transcription	K562	blood
46	chr6:30036400-30038000	Strong transcription	Primary monocytes fromperipheralblood	blood
47	chr6:30036400-30038000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr6:30036400-30038000	Strong transcription	Aorta	Aorta
49	chr6:30036400-30038000	Strong transcription	Left Ventricle	heart
50	chr6:30036400-30038000	Strong transcription	Pancreas	Pancrea

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links