Variant report

Variant	rs17060614
Chromosome Location	chr6:100895462-100895463
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	chr6:100894013..100895525-chr6:100899314..100902220,2	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1506080	0.85[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17060615	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1847912	1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs1857859	0.84[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs241812	0.96[CEU][hapmap];0.99[EUR][1000 genomes]
rs3213541	0.84[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3734353	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3778030	0.84[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3778032	0.84[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3798488	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3798490	0.85[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3798492	0.84[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3798495	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3798497	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs3830139	0.84[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.85[YRI][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs767933	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7741057	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7757905	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9390379	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949535	chr6:100740293-101469052	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1028122	chr6:100774245-100964347	Enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv1023710	chr6:100810738-101001115	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
4	nsv538388	chr6:100810738-101001115	Flanking Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
5	nsv515895	chr6:100868779-100910798	Bivalent/Poised TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
6	nsv533053	chr6:100883636-100911512	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:100894000-100897600	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr6:100894200-100895600	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
3	chr6:100894200-100895600	Bivalent Enhancer	Breast Myoepithelial Primary Cells	Breast
4	chr6:100894200-100895600	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr6:100894200-100895600	Flanking Bivalent TSS/Enh	Adipose Nuclei	Adipose
6	chr6:100894200-100895600	Bivalent Enhancer	Fetal Heart	heart
7	chr6:100894200-100896200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
8	chr6:100894400-100895600	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr6:100894400-100895600	Bivalent Enhancer	Stomach Mucosa	stomach
10	chr6:100894400-100895800	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr6:100894400-100895800	Bivalent Enhancer	Brain Dorsolateral Prefrontal Cortex	brain
12	chr6:100894400-100895800	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
13	chr6:100894400-100895800	Bivalent Enhancer	Fetal Muscle Leg	muscle
14	chr6:100894400-100896000	Bivalent Enhancer	Fetal Stomach	stomach
15	chr6:100894400-100896400	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
16	chr6:100894400-100896400	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr6:100894400-100896800	Bivalent Enhancer	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr6:100894400-100897600	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
19	chr6:100894400-100898000	Strong transcription	Muscle Satellite Cultured Cells	--
20	chr6:100894600-100895600	Bivalent Enhancer	Primary T regulatory cells fromperipheralblood	blood
21	chr6:100894600-100895600	Flanking Bivalent TSS/Enh	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr6:100894600-100895800	Bivalent Enhancer	Brain Anterior Caudate	brain
23	chr6:100894600-100901600	Weak transcription	Psoas Muscle	Psoas
24	chr6:100894800-100895600	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
25	chr6:100894800-100895600	Bivalent Enhancer	Brain Substantia Nigra	brain
26	chr6:100894800-100895600	Bivalent Enhancer	Fetal Lung	lung
27	chr6:100894800-100895600	Flanking Bivalent TSS/Enh	Stomach Smooth Muscle	stomach
28	chr6:100894800-100895800	Flanking Bivalent TSS/Enh	HUVEC	blood vessel
29	chr6:100894800-100896000	Flanking Bivalent TSS/Enh	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr6:100894800-100896000	Bivalent Enhancer	Lung	lung
31	chr6:100895000-100895600	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
32	chr6:100895000-100895600	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
33	chr6:100895000-100895600	Flanking Bivalent TSS/Enh	Duodenum Smooth Muscle	Duodenum
34	chr6:100895000-100895600	Bivalent Enhancer	Fetal Brain Female	brain
35	chr6:100895000-100895800	Bivalent Enhancer	Fetal Intestine Small	intestine
36	chr6:100895000-100895800	ZNF genes & repeats	Skeletal Muscle Female	skeletal muscle
37	chr6:100895000-100896200	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
38	chr6:100895000-100896200	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
39	chr6:100895000-100896200	Weak transcription	Pancreatic Islets	Pancreatic Islet
40	chr6:100895000-100896400	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
41	chr6:100895000-100896400	Bivalent Enhancer	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr6:100895000-100896400	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr6:100895000-100896400	ZNF genes & repeats	Spleen	Spleen
44	chr6:100895200-100895600	Bivalent Enhancer	iPS DF 6.9 Cell Line	embryonic stem cell
45	chr6:100895200-100895600	Bivalent Enhancer	Fetal Brain Male	brain
46	chr6:100895200-100895800	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
47	chr6:100895200-100895800	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
48	chr6:100895200-100895800	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
49	chr6:100895200-100896000	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
50	chr6:100895200-100896000	Bivalent Enhancer	Fetal Thymus	thymus

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