Variant report

Variant	rs7769014
Chromosome Location	chr6:56401889-56401890
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	chr6:56398077..56400962-chr6:56401619..56403800,2	K562	blood:
2	chr6:56396433..56398982-chr6:56400861..56403143,2	MCF-7	breast:

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs1024196	0.94[EUR][1000 genomes]
rs11963288	1.00[EUR][1000 genomes]
rs11966986	0.94[EUR][1000 genomes]
rs11967796	0.94[EUR][1000 genomes]
rs11970410	0.94[EUR][1000 genomes]
rs12662511	0.90[ASN][1000 genomes]
rs1407831	0.94[EUR][1000 genomes]
rs1535609	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1535611	1.00[EUR][1000 genomes]
rs16887928	0.94[EUR][1000 genomes]
rs16887983	0.86[ASN][1000 genomes]
rs16888070	0.94[EUR][1000 genomes]
rs16888106	0.94[EUR][1000 genomes]
rs17757606	0.97[ASN][1000 genomes]
rs17757660	0.98[ASN][1000 genomes]
rs17830661	0.97[ASN][1000 genomes]
rs17830685	1.00[ASN][1000 genomes]
rs17830715	1.00[ASN][1000 genomes]
rs17830726	1.00[ASN][1000 genomes]
rs17830810	0.90[ASN][1000 genomes]
rs2144407	0.94[EUR][1000 genomes]
rs2180148	0.94[EUR][1000 genomes]
rs2207678	0.94[EUR][1000 genomes]
rs2397224	0.94[EUR][1000 genomes]
rs28633631	0.94[EUR][1000 genomes]
rs3800026	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3924307	1.00[EUR][1000 genomes]
rs41267673	0.94[EUR][1000 genomes]
rs41271848	0.94[EUR][1000 genomes]
rs41271850	0.94[EUR][1000 genomes]
rs41271854	1.00[EUR][1000 genomes]
rs41271856	1.00[EUR][1000 genomes]
rs41271872	0.94[EUR][1000 genomes]
rs41271876	0.94[EUR][1000 genomes]
rs41271878	0.94[EUR][1000 genomes]
rs4256439	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4288197	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs45442999	1.00[EUR][1000 genomes]
rs45553042	0.89[EUR][1000 genomes]
rs57289287	0.94[EUR][1000 genomes]
rs57350484	0.94[EUR][1000 genomes]
rs57790896	0.94[EUR][1000 genomes]
rs57822928	1.00[EUR][1000 genomes]
rs58565063	0.94[EUR][1000 genomes]
rs58730144	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59772940	0.94[EUR][1000 genomes]
rs59864125	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62621210	1.00[EUR][1000 genomes]
rs6459167	0.94[EUR][1000 genomes]
rs6459168	0.94[EUR][1000 genomes]
rs6900572	0.94[EUR][1000 genomes]
rs6903517	0.81[EUR][1000 genomes]
rs6903815	0.94[EUR][1000 genomes]
rs6941626	0.94[EUR][1000 genomes]
rs73455767	1.00[EUR][1000 genomes]
rs73455782	1.00[EUR][1000 genomes]
rs73465854	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73746926	0.94[EUR][1000 genomes]
rs73746929	0.94[EUR][1000 genomes]
rs73747826	0.94[EUR][1000 genomes]
rs73747832	0.94[EUR][1000 genomes]
rs73749935	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73749942	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73749948	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73749949	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7749100	0.94[EUR][1000 genomes]
rs7759479	0.94[EUR][1000 genomes]
rs7760503	0.94[EUR][1000 genomes]
rs7760515	0.94[EUR][1000 genomes]
rs7760542	0.94[EUR][1000 genomes]
rs7760701	0.94[EUR][1000 genomes]
rs7761027	0.94[EUR][1000 genomes]
rs7775134	0.94[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	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	nsv830666	chr6:56243743-56419599	Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS 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	9 gene(s)	inside rSNPs	diseases
3	nsv885912	chr6:56327849-56458836	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1016868	chr6:56376165-56417631	Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
5	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

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56341800-56407400	Weak transcription	Spleen	Spleen
2	chr6:56363000-56402200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:56376400-56407200	Weak transcription	Gastric	stomach
4	chr6:56377200-56404200	Weak transcription	K562	blood
5	chr6:56383200-56402400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:56384400-56402200	Weak transcription	Small Intestine	intestine
7	chr6:56388000-56402200	Strong transcription	Fetal Intestine Large	intestine
8	chr6:56390600-56403800	Weak transcription	Thymus	Thymus
9	chr6:56390800-56402400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr6:56390800-56403000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr6:56391400-56402200	Weak transcription	Lung	lung
12	chr6:56391400-56402400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr6:56391400-56402800	Strong transcription	Fetal Muscle Leg	muscle
14	chr6:56392400-56406200	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr6:56393000-56402000	Weak transcription	Fetal Heart	heart
16	chr6:56395400-56405200	Weak transcription	Placenta	Placenta
17	chr6:56397000-56403600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr6:56397000-56405200	Weak transcription	Brain Germinal Matrix	brain
19	chr6:56397200-56402200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr6:56397200-56406600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr6:56397400-56405600	Weak transcription	Fetal Brain Female	brain
22	chr6:56398200-56405000	Weak transcription	Placenta Amnion	Placenta Amnion
23	chr6:56398600-56402400	Strong transcription	GM12878-XiMat	blood
24	chr6:56399400-56402200	Strong transcription	Fetal Stomach	stomach
25	chr6:56399400-56402600	Enhancers	Brain Angular Gyrus	brain
26	chr6:56399600-56403000	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr6:56399800-56403000	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr6:56400000-56402600	Genic enhancers	HSMM	muscle
29	chr6:56400000-56404200	Weak transcription	Stomach Mucosa	stomach
30	chr6:56400000-56404600	Weak transcription	Monocytes-CD14+_RO01746	blood
31	chr6:56400000-56405400	Weak transcription	Fetal Thymus	thymus
32	chr6:56400200-56402200	Weak transcription	Fetal Intestine Small	intestine
33	chr6:56400200-56403000	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr6:56400200-56404200	Weak transcription	A549	lung
35	chr6:56400200-56404800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr6:56400200-56405200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr6:56400200-56405800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr6:56400400-56402200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
39	chr6:56400400-56407000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
40	chr6:56400600-56403000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
41	chr6:56400800-56402000	Enhancers	Duodenum Smooth Muscle	Duodenum
42	chr6:56400800-56402400	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
43	chr6:56400800-56402600	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr6:56400800-56402600	Genic enhancers	NHLF	lung
45	chr6:56400800-56403000	Transcr. at gene 5' and 3'	Fetal Lung	lung
46	chr6:56400800-56403800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr6:56400800-56404000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
48	chr6:56400800-56404600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr6:56401000-56404600	Weak transcription	Primary hematopoietic stem cells	blood
50	chr6:56401200-56402000	Enhancers	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links