Variant report

Variant	rs16888096
Chromosome Location	chr6:56511838-56511839
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr6:56511710-56511867	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:56510440..56512987-chr6:56514462..56516109,2	K562	blood:

Variant related genes	Relation type
DST	TF binding region

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs1024196	1.00[ASN][1000 genomes]
rs11961141	0.89[ASN][1000 genomes]
rs11961342	1.00[ASN][1000 genomes]
rs11966986	1.00[ASN][1000 genomes]
rs11967796	1.00[ASN][1000 genomes]
rs11968575	0.89[ASN][1000 genomes]
rs11970410	0.90[ASN][1000 genomes]
rs13191164	1.00[ASN][1000 genomes]
rs13192478	0.89[ASN][1000 genomes]
rs13192567	0.89[ASN][1000 genomes]
rs13205013	1.00[ASN][1000 genomes]
rs13210876	0.89[ASN][1000 genomes]
rs13213878	0.89[ASN][1000 genomes]
rs13219546	0.89[ASN][1000 genomes]
rs16888085	0.90[ASN][1000 genomes]
rs16888106	1.00[ASN][1000 genomes]
rs16888118	1.00[ASN][1000 genomes]
rs16888124	1.00[ASN][1000 genomes]
rs16888128	1.00[ASN][1000 genomes]
rs16888130	1.00[ASN][1000 genomes]
rs16888133	1.00[ASN][1000 genomes]
rs16888135	0.89[ASN][1000 genomes]
rs2144407	1.00[ASN][1000 genomes]
rs2180148	0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2207678	0.85[YRI][hapmap];0.83[AFR][1000 genomes]
rs2967960	0.89[ASN][1000 genomes]
rs3002003	0.89[ASN][1000 genomes]
rs3002004	0.89[ASN][1000 genomes]
rs34138864	0.90[ASN][1000 genomes]
rs34429594	1.00[ASN][1000 genomes]
rs34724718	1.00[ASN][1000 genomes]
rs34812826	0.89[ASN][1000 genomes]
rs34824960	0.89[ASN][1000 genomes]
rs35089136	0.89[ASN][1000 genomes]
rs35206656	1.00[ASN][1000 genomes]
rs35637749	1.00[ASN][1000 genomes]
rs35687635	1.00[ASN][1000 genomes]
rs35920751	0.89[ASN][1000 genomes]
rs36068365	1.00[ASN][1000 genomes]
rs4072271	1.00[ASN][1000 genomes]
rs41267673	1.00[ASN][1000 genomes]
rs4133076	1.00[ASN][1000 genomes]
rs4275049	0.89[ASN][1000 genomes]
rs4574644	0.89[ASN][1000 genomes]
rs4640889	0.89[ASN][1000 genomes]
rs56094263	0.89[ASN][1000 genomes]
rs56196625	1.00[ASN][1000 genomes]
rs57289287	1.00[ASN][1000 genomes]
rs57350484	0.80[AFR][1000 genomes]
rs57392123	1.00[ASN][1000 genomes]
rs57488435	1.00[ASN][1000 genomes]
rs58565063	1.00[ASN][1000 genomes]
rs59073430	1.00[ASN][1000 genomes]
rs59085778	0.89[ASN][1000 genomes]
rs59162324	0.89[ASN][1000 genomes]
rs59247267	0.89[ASN][1000 genomes]
rs59772940	1.00[ASN][1000 genomes]
rs59889120	1.00[ASN][1000 genomes]
rs60360551	1.00[ASN][1000 genomes]
rs60498201	0.89[ASN][1000 genomes]
rs6459167	1.00[ASN][1000 genomes]
rs6459168	1.00[ASN][1000 genomes]
rs6900572	1.00[ASN][1000 genomes]
rs6901176	1.00[ASN][1000 genomes]
rs6903815	1.00[ASN][1000 genomes]
rs6916813	0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6924375	1.00[ASN][1000 genomes]
rs6926134	0.89[ASN][1000 genomes]
rs6941626	0.83[AFR][1000 genomes]
rs73746926	1.00[ASN][1000 genomes]
rs73746929	1.00[ASN][1000 genomes]
rs73746930	1.00[ASN][1000 genomes]
rs73746931	1.00[ASN][1000 genomes]
rs7749100	1.00[ASN][1000 genomes]
rs7749437	1.00[ASN][1000 genomes]
rs7759479	1.00[ASN][1000 genomes]
rs7760503	1.00[ASN][1000 genomes]
rs7760542	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7761027	0.80[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7767128	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv934026	chr6:56382056-57184218	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv533050	chr6:56504480-57297586	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv432888	chr6:56507489-56560764	Weak transcription Flanking Active TSS Strong transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56417000-56516400	Weak transcription	Pancreas	Pancrea
2	chr6:56432800-56513600	Weak transcription	Small Intestine	intestine
3	chr6:56441000-56524800	Weak transcription	Colonic Mucosa	Colon
4	chr6:56451800-56514200	Weak transcription	Primary hematopoietic stem cells	blood
5	chr6:56452200-56514600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr6:56459000-56521000	Weak transcription	Spleen	Spleen
7	chr6:56460600-56513600	Weak transcription	Stomach Mucosa	stomach
8	chr6:56478400-56514600	Weak transcription	Lung	lung
9	chr6:56480600-56514600	Strong transcription	HUES64 Cell Line	embryonic stem cell
10	chr6:56480800-56536400	Weak transcription	Gastric	stomach
11	chr6:56482000-56518200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr6:56483400-56512600	Weak transcription	Psoas Muscle	Psoas
13	chr6:56485000-56514400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr6:56485800-56512400	Weak transcription	Fetal Stomach	stomach
15	chr6:56490000-56513600	Strong transcription	Fetal Intestine Large	intestine
16	chr6:56491600-56536600	Weak transcription	Fetal Brain Female	brain
17	chr6:56496600-56517000	Weak transcription	Fetal Brain Male	brain
18	chr6:56496800-56515000	Weak transcription	Fetal Kidney	kidney
19	chr6:56497800-56524800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr6:56499400-56516800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr6:56500600-56514200	Weak transcription	Fetal Heart	heart
22	chr6:56500800-56513000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
23	chr6:56501800-56524600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr6:56502000-56512400	Weak transcription	Fetal Intestine Small	intestine
25	chr6:56505400-56514600	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr6:56505600-56522000	Weak transcription	Primary monocytes fromperipheralblood	blood
27	chr6:56505600-56537400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr6:56506000-56516000	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr6:56507400-56515800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr6:56507800-56514400	Weak transcription	Aorta	Aorta
31	chr6:56508200-56514000	Weak transcription	Hela-S3	cervix
32	chr6:56508200-56514600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr6:56508200-56520000	Weak transcription	Rectal Smooth Muscle	rectum
34	chr6:56508400-56512000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr6:56508800-56513800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr6:56508800-56514200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr6:56508800-56514600	Strong transcription	HSMMtube	muscle
38	chr6:56508800-56517000	Weak transcription	Pancreatic Islets	Pancreatic Islet
39	chr6:56509000-56513600	Strong transcription	Fetal Lung	lung
40	chr6:56509000-56514200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
41	chr6:56509000-56514800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr6:56509200-56513200	Strong transcription	Duodenum Smooth Muscle	Duodenum
43	chr6:56509200-56514200	Strong transcription	Muscle Satellite Cultured Cells	--
44	chr6:56509200-56514400	Strong transcription	HUES6 Cell Line	embryonic stem cell
45	chr6:56509200-56514600	Strong transcription	HUES48 Cell Line	embryonic stem cell
46	chr6:56509200-56515400	Strong transcription	GM12878-XiMat	blood
47	chr6:56509400-56512800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
48	chr6:56509400-56513400	Strong transcription	Adipose Nuclei	Adipose
49	chr6:56509400-56513400	Strong transcription	Rectal Mucosa Donor 31	rectum
50	chr6:56509400-56513800	Strong transcription	NHLF	lung

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