Variant report

Variant	rs1046216
Chromosome Location	chr11:85347415-85347416
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:85337741..85343545-chr11:85345780..85354384,11	MCF-7	breast:
2	chr11:85347047..85348575-chr11:85349849..85352834,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000171204	Chromatin interaction
ENSG00000150672	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs11600919	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11603256	0.83[ASW][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.86[YRI][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11606688	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11821005	0.85[ASN][1000 genomes]
rs1237203	0.83[ASW][hapmap];0.95[CHB][hapmap];0.87[CHD][hapmap];0.85[JPT][hapmap];0.89[YRI][hapmap];0.87[ASN][1000 genomes]
rs17148293	0.80[AFR][1000 genomes]
rs2117312	0.90[ASN][1000 genomes]
rs2196168	0.94[ASW][hapmap];0.80[CEU][hapmap];0.95[CHB][hapmap];0.90[CHD][hapmap];0.88[GIH][hapmap];0.95[JPT][hapmap];0.96[MEX][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2290823	0.89[ASW][hapmap];0.96[YRI][hapmap]
rs290173	0.91[CHB][hapmap];0.91[JPT][hapmap]
rs290174	0.80[ASN][1000 genomes]
rs290180	0.81[CHB][hapmap];0.85[CHD][hapmap];0.87[ASN][1000 genomes]
rs290181	0.88[ASN][1000 genomes]
rs290183	0.86[CEU][hapmap];0.93[CHB][hapmap];0.85[JPT][hapmap];0.82[YRI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs290184	0.94[ASW][hapmap];0.93[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];0.91[JPT][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs290185	0.82[ASW][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.90[JPT][hapmap];0.93[YRI][hapmap];0.89[ASN][1000 genomes]
rs290190	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs290195	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs290200	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs290202	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs370385	0.95[CHB][hapmap];0.91[JPT][hapmap];0.93[YRI][hapmap];0.89[ASN][1000 genomes]
rs3753050	0.94[ASW][hapmap];0.86[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.96[MEX][hapmap];0.87[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3781815	0.85[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.83[YRI][hapmap];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3817087	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3824956	0.94[ASW][hapmap];0.93[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.96[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3862782	0.94[ASW][hapmap];0.86[CEU][hapmap];0.95[CHB][hapmap];0.90[CHD][hapmap];0.88[GIH][hapmap];0.95[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4301809	0.83[ASN][1000 genomes]
rs431606	0.81[CHB][hapmap];0.85[CHD][hapmap];0.87[ASN][1000 genomes]
rs491867	0.81[CHB][hapmap];0.91[JPT][hapmap]
rs4944526	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4944530	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs496187	0.91[JPT][hapmap]
rs522604	0.91[ASN][1000 genomes]
rs540063	0.86[JPT][hapmap]
rs550404	0.91[JPT][hapmap]
rs552013	0.94[ASN][1000 genomes]
rs556669	0.91[JPT][hapmap]
rs57296431	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs575050	0.85[CHD][hapmap]
rs57549298	0.88[ASN][1000 genomes]
rs580459	0.91[JPT][hapmap]
rs589327	0.82[JPT][hapmap]
rs592460	0.95[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs597480	0.91[JPT][hapmap]
rs61114547	0.86[ASN][1000 genomes]
rs61567739	0.80[ASN][1000 genomes]
rs631410	0.91[JPT][hapmap]
rs641393	0.91[JPT][hapmap]
rs647912	0.91[JPT][hapmap]
rs679204	0.90[JPT][hapmap]
rs680498	0.81[CHB][hapmap];0.91[JPT][hapmap]
rs7107788	0.94[ASW][hapmap];0.93[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.96[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7113528	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7116195	0.94[ASW][hapmap];0.80[CEU][hapmap];0.95[CHB][hapmap];0.90[CHD][hapmap];0.85[GIH][hapmap];0.91[JPT][hapmap];0.96[MEX][hapmap];0.85[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7119617	0.89[ASW][hapmap];0.96[YRI][hapmap]
rs7122887	0.84[ASN][1000 genomes]
rs7925739	0.90[ASN][1000 genomes]
rs7940714	0.81[ASN][1000 genomes]
rs7943586	0.88[ASW][hapmap];0.93[YRI][hapmap]
rs7948778	0.86[YRI][hapmap]
rs881120	0.95[CHB][hapmap];0.97[CHD][hapmap];0.91[JPT][hapmap];0.96[YRI][hapmap];0.94[ASN][1000 genomes]
rs956202	0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[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	nsv1051155	chr11:85006564-85721261	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv541110	chr11:85006564-85721261	Enhancers Strong transcription Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
3	nsv898047	chr11:85180409-85377707	Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
4	esv2758279	chr11:85180480-85603988	Flanking Active TSS Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
5	esv2759845	chr11:85180480-85603988	Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
6	nsv898048	chr11:85206156-85404138	Flanking Active TSS Genic enhancers Active TSS Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:85340200-85348400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr11:85340200-85351800	Weak transcription	Gastric	stomach
3	chr11:85340200-85352400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr11:85340400-85349400	Weak transcription	Pancreas	Pancrea
5	chr11:85340400-85351000	Weak transcription	Esophagus	oesophagus
6	chr11:85340600-85347600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr11:85340600-85350000	Weak transcription	Stomach Mucosa	stomach
8	chr11:85340600-85352800	Weak transcription	Fetal Brain Male	brain
9	chr11:85340600-85358200	Weak transcription	Aorta	Aorta
10	chr11:85340800-85350000	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr11:85340800-85358200	Weak transcription	Fetal Stomach	stomach
12	chr11:85340800-85358200	Weak transcription	Right Ventricle	heart
13	chr11:85340800-85358200	Weak transcription	HSMMtube	muscle
14	chr11:85341000-85351600	Weak transcription	Thymus	Thymus
15	chr11:85341200-85348000	Weak transcription	Fetal Brain Female	brain
16	chr11:85341200-85354400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr11:85341200-85358000	Weak transcription	Brain Cingulate Gyrus	brain
18	chr11:85341200-85358000	Weak transcription	NHLF	lung
19	chr11:85341200-85358200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr11:85341200-85358200	Weak transcription	Rectal Smooth Muscle	rectum
21	chr11:85341200-85358200	Weak transcription	Spleen	Spleen
22	chr11:85341200-85358400	Weak transcription	Small Intestine	intestine
23	chr11:85341400-85354200	Weak transcription	Fetal Intestine Small	intestine
24	chr11:85341800-85348800	Strong transcription	Liver	Liver
25	chr11:85341800-85353000	Weak transcription	Fetal Heart	heart
26	chr11:85342000-85347600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr11:85342000-85348400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
28	chr11:85342000-85349200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr11:85342200-85358200	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr11:85342400-85352600	Weak transcription	Psoas Muscle	Psoas
31	chr11:85342800-85352600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr11:85343000-85349400	Strong transcription	Primary T helper cells fromperipheralblood	blood
33	chr11:85344400-85348800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr11:85344400-85349400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr11:85344400-85350400	Strong transcription	Monocytes-CD14+_RO01746	blood
36	chr11:85344600-85347800	Strong transcription	Primary T helper cells PMA-I stimulated	--
37	chr11:85344600-85348800	Strong transcription	HUVEC	blood vessel
38	chr11:85344600-85349400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr11:85344600-85351000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr11:85344800-85348200	Strong transcription	NHDF-Ad	bronchial
41	chr11:85344800-85348800	Strong transcription	HUES48 Cell Line	embryonic stem cell
42	chr11:85344800-85348800	Strong transcription	Rectal Mucosa Donor 31	rectum
43	chr11:85344800-85349200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr11:85344800-85349600	Strong transcription	HUES64 Cell Line	embryonic stem cell
45	chr11:85344800-85350400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr11:85345000-85347600	Strong transcription	Primary B cells from peripheral blood	blood
47	chr11:85345000-85347600	Strong transcription	Primary hematopoietic stem cells	blood
48	chr11:85345000-85347600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr11:85345000-85347800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr11:85345000-85348000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links