Variant report

Variant	rs7762880
Chromosome Location	chr6:146226088-146226089
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:146225888..146227710-chr6:146240517..146242939,2	K562	blood:
2	chr6:146221103..146223678-chr6:146224120..146226593,3	K562	blood:
3	chr6:146221312..146222849-chr6:146224699..146226855,2	K562	blood:
4	chr6:146223883..146226442-chr6:146227329..146230872,3	K562	blood:

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs12332892	1.00[EUR][1000 genomes]
rs28738876	1.00[EUR][1000 genomes]
rs55671343	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55879513	1.00[EUR][1000 genomes]
rs56954340	1.00[EUR][1000 genomes]
rs57057101	1.00[EUR][1000 genomes]
rs57776904	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57889864	1.00[EUR][1000 genomes]
rs58290238	1.00[EUR][1000 genomes]
rs58702332	1.00[EUR][1000 genomes]
rs59951042	1.00[EUR][1000 genomes]
rs60430705	1.00[EUR][1000 genomes]
rs60698481	1.00[EUR][1000 genomes]
rs60885622	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60899243	1.00[EUR][1000 genomes]
rs6570725	1.00[EUR][1000 genomes]
rs6570727	1.00[EUR][1000 genomes]
rs6570730	1.00[EUR][1000 genomes]
rs6900565	1.00[EUR][1000 genomes]
rs6900607	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs6904612	1.00[EUR][1000 genomes]
rs6918314	1.00[EUR][1000 genomes]
rs6920565	1.00[EUR][1000 genomes]
rs6924714	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6928607	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs6935019	1.00[EUR][1000 genomes]
rs6936647	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs6936879	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6938895	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs6940256	1.00[EUR][1000 genomes]
rs73566143	1.00[EUR][1000 genomes]
rs73570006	1.00[EUR][1000 genomes]
rs73570010	1.00[EUR][1000 genomes]
rs73570033	1.00[EUR][1000 genomes]
rs73570037	1.00[EUR][1000 genomes]
rs73570042	1.00[EUR][1000 genomes]
rs73572161	1.00[EUR][1000 genomes]
rs73572189	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73574105	1.00[EUR][1000 genomes]
rs73576133	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73576161	1.00[EUR][1000 genomes]
rs73576173	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73576180	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73576928	1.00[EUR][1000 genomes]
rs73578805	1.00[EUR][1000 genomes]
rs73578807	1.00[EUR][1000 genomes]
rs73578811	1.00[EUR][1000 genomes]
rs73578812	1.00[EUR][1000 genomes]
rs73578814	1.00[EUR][1000 genomes]
rs73578823	1.00[EUR][1000 genomes]
rs73578827	1.00[EUR][1000 genomes]
rs73578832	1.00[EUR][1000 genomes]
rs73578833	1.00[EUR][1000 genomes]
rs73580158	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73580169	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73580174	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73580180	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73580202	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73582109	1.00[EUR][1000 genomes]
rs73582112	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73582116	1.00[EUR][1000 genomes]
rs73582125	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73582139	1.00[EUR][1000 genomes]
rs73582149	1.00[EUR][1000 genomes]
rs73582176	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73582189	1.00[EUR][1000 genomes]
rs73584226	1.00[EUR][1000 genomes]
rs7739858	1.00[EUR][1000 genomes]
rs7740567	1.00[EUR][1000 genomes]
rs7757974	1.00[EUR][1000 genomes]
rs9322040	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9485028	1.00[ASW][hapmap];0.91[LWK][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs9497422	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9497423	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9497430	1.00[EUR][1000 genomes]
rs9497449	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034226	chr6:146071068-146306942	Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv830835	chr6:146145148-146287473	Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv437525	chr6:146212285-146230454	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:146200400-146228600	Weak transcription	Pancreas	Pancrea
2	chr6:146201200-146230400	Weak transcription	NHEK	skin
3	chr6:146207800-146240200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr6:146208800-146230000	Weak transcription	Colonic Mucosa	Colon
5	chr6:146210200-146231000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr6:146210400-146230400	Weak transcription	NH-A	brain
7	chr6:146210400-146282000	Weak transcription	Spleen	Spleen
8	chr6:146211600-146236000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr6:146213800-146230400	Weak transcription	HUVEC	blood vessel
10	chr6:146215000-146242200	Weak transcription	Hela-S3	cervix
11	chr6:146219000-146228000	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr6:146219000-146228000	Weak transcription	Stomach Smooth Muscle	stomach
13	chr6:146219200-146226400	Weak transcription	Brain Angular Gyrus	brain
14	chr6:146219200-146226800	Weak transcription	Fetal Brain Female	brain
15	chr6:146219200-146227800	Weak transcription	Brain Cingulate Gyrus	brain
16	chr6:146219200-146249200	Strong transcription	HUES6 Cell Line	embryonic stem cell
17	chr6:146219200-146276600	Strong transcription	HUES64 Cell Line	embryonic stem cell
18	chr6:146219600-146250600	Strong transcription	Dnd41	blood
19	chr6:146219800-146226600	Enhancers	Skeletal Muscle Male	skeletal muscle
20	chr6:146219800-146227800	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr6:146219800-146271400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr6:146220000-146227000	Weak transcription	Fetal Muscle Trunk	muscle
23	chr6:146220000-146227200	Weak transcription	Duodenum Mucosa	Duodenum
24	chr6:146220000-146227400	Weak transcription	Fetal Kidney	kidney
25	chr6:146220000-146228600	Weak transcription	Fetal Intestine Large	intestine
26	chr6:146220000-146228600	Weak transcription	Fetal Thymus	thymus
27	chr6:146220000-146229000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr6:146220000-146231400	Weak transcription	Aorta	Aorta
29	chr6:146220000-146249400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr6:146220000-146255200	Weak transcription	Gastric	stomach
31	chr6:146220000-146259400	Weak transcription	Esophagus	oesophagus
32	chr6:146220000-146276800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr6:146220000-146283200	Weak transcription	Small Intestine	intestine
34	chr6:146220200-146226400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr6:146220200-146228000	Weak transcription	Lung	lung
36	chr6:146220200-146228800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr6:146220200-146228800	Weak transcription	HMEC	breast
38	chr6:146220200-146230200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr6:146220200-146231400	Weak transcription	Thymus	Thymus
40	chr6:146220200-146231600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr6:146220200-146268400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr6:146220400-146227200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
43	chr6:146220400-146255200	Weak transcription	Fetal Intestine Small	intestine
44	chr6:146221000-146228600	Weak transcription	Primary T helper cells fromperipheralblood	blood
45	chr6:146221000-146229400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
46	chr6:146221000-146230200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
47	chr6:146221200-146228400	Weak transcription	Duodenum Smooth Muscle	Duodenum
48	chr6:146221600-146230200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr6:146221800-146228000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr6:146221800-146228000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links