Variant report

Variant	rs58176671
Chromosome Location	chr11:57671083-57671084
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	chr11:57666728..57668740-chr11:57669401..57671347,2	MCF-7	breast:
2	chr11:57666968..57668868-chr11:57669771..57671757,2	MCF-7	breast:

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10444364	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10736687	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10750868	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10896643	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12284427	1.00[AMR][1000 genomes]
rs1313360	1.00[ASN][1000 genomes]
rs1553827	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1798174	1.00[ASN][1000 genomes]
rs1939322	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2441951	1.00[ASN][1000 genomes]
rs2441957	1.00[ASN][1000 genomes]
rs2441980	1.00[ASN][1000 genomes]
rs2513707	1.00[ASN][1000 genomes]
rs2513708	1.00[ASN][1000 genomes]
rs2860261	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3019057	1.00[ASN][1000 genomes]
rs34430954	1.00[ASN][1000 genomes]
rs474073	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs474464	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs505995	1.00[ASN][1000 genomes]
rs523739	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs542777	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs552122	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs554140	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs557051	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs55786036	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs55838210	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56879142	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57201273	1.00[ASN][1000 genomes]
rs57260887	1.00[ASN][1000 genomes]
rs57759830	1.00[ASN][1000 genomes]
rs585190	1.00[ASN][1000 genomes]
rs58851976	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs59046396	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60076210	1.00[ASN][1000 genomes]
rs60282001	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60897155	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61444907	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61638601	1.00[ASN][1000 genomes]
rs61743110	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs627861	1.00[ASN][1000 genomes]
rs635663	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs637116	1.00[ASN][1000 genomes]
rs648412	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7103407	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7103768	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7105331	1.00[ASN][1000 genomes]
rs7110490	1.00[ASN][1000 genomes]
rs7112557	1.00[ASN][1000 genomes]
rs7118249	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7118308	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7122105	0.87[AMR][1000 genomes]
rs7131175	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73472468	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73474417	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73474449	1.00[ASN][1000 genomes]
rs73474453	1.00[ASN][1000 genomes]
rs73474454	1.00[ASN][1000 genomes]
rs73474455	1.00[ASN][1000 genomes]
rs73474476	1.00[ASN][1000 genomes]
rs73482748	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73482786	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73482796	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73482801	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7928666	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7938752	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs947940	0.87[AMR][1000 genomes];1.00[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	nsv1044030	chr11:57073395-58035564	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
2	nsv541047	chr11:57073395-58035564	Active TSS Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
3	nsv530621	chr11:57139699-57703639	Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Weak transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	109 gene(s)	inside rSNPs	diseases
4	nsv1040913	chr11:57315006-57696122	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	93 gene(s)	inside rSNPs	diseases
5	nsv1054205	chr11:57544264-58358509	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
6	nsv897589	chr11:57623815-58052357	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:57660600-57671200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr11:57664600-57672000	Weak transcription	Right Atrium	heart
3	chr11:57666200-57673000	Enhancers	Rectal Mucosa Donor 31	rectum
4	chr11:57666200-57673200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr11:57666400-57671200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr11:57666400-57671200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr11:57666400-57672000	Enhancers	HMEC	breast
8	chr11:57666800-57672000	Enhancers	Fetal Intestine Small	intestine
9	chr11:57667800-57671800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr11:57667800-57673000	Enhancers	Stomach Mucosa	stomach
11	chr11:57668000-57671800	Enhancers	Placenta Amnion	Placenta Amnion
12	chr11:57669200-57671200	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr11:57669600-57671200	Enhancers	K562	blood
14	chr11:57670000-57671200	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr11:57670000-57671400	Enhancers	HUES64 Cell Line	embryonic stem cell
16	chr11:57670400-57671200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr11:57670400-57671200	Weak transcription	Esophagus	oesophagus
18	chr11:57670800-57671200	Weak transcription	Placenta	Placenta
19	chr11:57670800-57671800	Enhancers	Breast Myoepithelial Primary Cells	Breast
20	chr11:57670800-57672400	Enhancers	Rectal Mucosa Donor 29	rectum
21	chr11:57670800-57672400	Flanking Active TSS	NHEK	skin
22	chr11:57671000-57671200	Enhancers	Fetal Intestine Large	intestine
23	chr11:57671000-57671200	Enhancers	Skeletal Muscle Male	skeletal muscle
24	chr11:57671000-57671400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr11:57671000-57671600	Enhancers	H1 Cell Line	embryonic stem cell
26	chr11:57671000-57671600	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr11:57671000-57671600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
28	chr11:57671000-57671600	Enhancers	Muscle Satellite Cultured Cells	--
29	chr11:57671000-57671600	Enhancers	Gastric	stomach
30	chr11:57671000-57671600	Enhancers	Pancreas	Pancrea
31	chr11:57671000-57671800	Enhancers	Duodenum Mucosa	Duodenum
32	chr11:57671000-57671800	Enhancers	A549	lung
33	chr11:57671000-57672200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr11:57671000-57672400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr11:57671000-57672400	Flanking Active TSS	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links