Variant report

Variant	rs6484710
Chromosome Location	chr11:34377086-34377087
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:34352862..34355628-chr11:34375081..34377214,3	MCF-7	breast:
2	chr11:34126304..34129768-chr11:34376546..34381116,4	MCF-7	breast:
3	chr11:34195960..34197951-chr11:34375178..34377158,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000135372	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10742313	0.80[EUR][1000 genomes]
rs10742314	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10768059	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10768060	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10768061	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10768062	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10768063	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10768064	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10768065	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10768066	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10768067	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10768068	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10768069	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10836190	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10836191	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10836194	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10836195	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10836196	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10836197	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11032621	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11032624	0.88[EUR][1000 genomes]
rs11032625	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11032627	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11032628	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11032631	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11032632	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11032634	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11032635	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11032642	0.92[EUR][1000 genomes]
rs11032650	0.83[EUR][1000 genomes]
rs12296013	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12787642	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1810506	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1810507	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1883736	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1925368	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1925371	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1925372	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1925374	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1977109	0.80[EUR][1000 genomes]
rs2001176	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2092485	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3740795	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3740796	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3817990	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3981191	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3981192	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4140544	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4993520	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6484711	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7110380	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7124239	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs742634	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7927418	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7927718	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs910088	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9651597	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv897205	chr11:34248229-34507213	Enhancers Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv897207	chr11:34253683-34621004	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
3	nsv897208	chr11:34257064-34562247	Strong transcription Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	nsv897209	chr11:34309519-34548906	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv897210	chr11:34349427-34381075	Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:34368400-34377800	Weak transcription	Gastric	stomach
2	chr11:34372000-34377200	Weak transcription	Aorta	Aorta
3	chr11:34375400-34377400	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr11:34375600-34378000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr11:34375800-34378000	Flanking Active TSS	Brain Germinal Matrix	brain
6	chr11:34376000-34377200	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr11:34376200-34377200	Enhancers	Brain Anterior Caudate	brain
8	chr11:34376200-34377200	Enhancers	Hela-S3	cervix
9	chr11:34376200-34377200	Enhancers	NH-A	brain
10	chr11:34376200-34377400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr11:34376200-34377400	Enhancers	Duodenum Smooth Muscle	Duodenum
12	chr11:34376200-34377600	Enhancers	Placenta	Placenta
13	chr11:34376200-34377600	Enhancers	HMEC	breast
14	chr11:34376200-34377800	Bivalent Enhancer	Breast Myoepithelial Primary Cells	Breast
15	chr11:34376200-34378000	Flanking Active TSS	A549	lung
16	chr11:34376200-34378600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr11:34376400-34377200	Bivalent Enhancer	H9 Cell Line	embryonic stem cell
18	chr11:34376400-34377200	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
19	chr11:34376400-34377200	Bivalent Enhancer	Primary neutrophils fromperipheralblood	blood
20	chr11:34376400-34377200	Flanking Active TSS	GM12878-XiMat	blood
21	chr11:34376400-34377200	Enhancers	NHEK	skin
22	chr11:34376400-34377400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr11:34376400-34377400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr11:34376400-34377400	Enhancers	Fetal Thymus	thymus
25	chr11:34376400-34377400	Enhancers	Psoas Muscle	Psoas
26	chr11:34376400-34377600	Enhancers	Primary hematopoietic stem cells short term culture	blood
27	chr11:34376400-34377600	Enhancers	Pancreas	Pancrea
28	chr11:34376400-34377600	Flanking Active TSS	HepG2	liver
29	chr11:34376400-34377800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr11:34376400-34378200	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr11:34376400-34381200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr11:34376600-34377200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr11:34376600-34377200	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
34	chr11:34376600-34377200	Bivalent Enhancer	Fetal Kidney	kidney
35	chr11:34376600-34377600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr11:34376600-34377600	Active TSS	Fetal Brain Female	brain
37	chr11:34376600-34377600	Weak transcription	Lung	lung
38	chr11:34376600-34378000	Flanking Active TSS	HSMM	muscle
39	chr11:34376600-34378800	Flanking Active TSS	Liver	Liver
40	chr11:34376800-34377200	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
41	chr11:34376800-34377200	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
42	chr11:34376800-34377200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr11:34376800-34377200	Weak transcription	Muscle Satellite Cultured Cells	--
44	chr11:34376800-34377200	Weak transcription	Brain Angular Gyrus	brain
45	chr11:34376800-34377200	Enhancers	Colon Smooth Muscle	Colon
46	chr11:34376800-34377600	Active TSS	Right Atrium	heart
47	chr11:34376800-34379400	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
48	chr11:34376800-34379400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
49	chr11:34376800-34379400	Flanking Active TSS	Stomach Smooth Muscle	stomach
50	chr11:34377000-34377200	Active TSS	ES-WA7 Cell Line	embryonic stem cell

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