Variant report

Variant	rs17087440
Chromosome Location	chr6:149827125-149827126
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:149821833..149823936-chr6:149826832..149829564,2	K562	blood:
2	chr6:149826630..149828653-chr6:149833596..149836466,2	MCF-7	breast:
3	chr6:149820594..149823333-chr6:149826797..149829564,2	K562	blood:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs11963941	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11964790	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11964826	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087477	0.91[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087520	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087666	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35077558	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35515786	0.88[AFR][1000 genomes]
rs56859590	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57065071	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57925355	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61666489	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6926725	0.91[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6926874	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6938702	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73602752	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73602754	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604736	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604737	0.93[AFR][1000 genomes]
rs73604743	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604754	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604776	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604778	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604779	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604781	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604784	0.88[AFR][1000 genomes]
rs73604790	0.88[AFR][1000 genomes]
rs73604795	0.88[AFR][1000 genomes]
rs73604799	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73606715	0.88[AFR][1000 genomes]
rs73606737	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73606738	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7746594	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7771139	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7773304	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9689443	0.88[AFR][1000 genomes]
rs9766104	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9767369	0.91[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530444	chr6:149654540-149848997	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats 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	7 gene(s)	inside rSNPs	diseases
2	esv1832313	chr6:149789511-149840750	Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149806400-149832000	Weak transcription	HSMMtube	muscle
2	chr6:149806400-149844800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr6:149806800-149832400	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr6:149807000-149832200	Weak transcription	Lung	lung
5	chr6:149807000-149849000	Weak transcription	Gastric	stomach
6	chr6:149807200-149832000	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr6:149807200-149835000	Weak transcription	Spleen	Spleen
8	chr6:149807200-149842600	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr6:149810800-149851600	Weak transcription	Esophagus	oesophagus
10	chr6:149811200-149860600	Weak transcription	Aorta	Aorta
11	chr6:149815600-149845000	Weak transcription	Small Intestine	intestine
12	chr6:149817000-149830800	Weak transcription	Brain Angular Gyrus	brain
13	chr6:149817800-149829000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr6:149818200-149830400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr6:149818400-149843800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr6:149818800-149828200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr6:149818800-149845000	Weak transcription	A549	lung
18	chr6:149819000-149827200	Weak transcription	GM12878-XiMat	blood
19	chr6:149819200-149832000	Weak transcription	Stomach Smooth Muscle	stomach
20	chr6:149819400-149828800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
21	chr6:149819800-149828200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr6:149820400-149828800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
23	chr6:149820400-149831000	Weak transcription	Ovary	ovary
24	chr6:149820400-149831600	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr6:149820400-149832000	Weak transcription	Fetal Heart	heart
26	chr6:149820400-149837400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr6:149820400-149840800	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr6:149820400-149845200	Weak transcription	Hela-S3	cervix
29	chr6:149820400-149849000	Weak transcription	Psoas Muscle	Psoas
30	chr6:149820400-149850200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr6:149820600-149828800	Weak transcription	HepG2	liver
32	chr6:149820600-149830400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr6:149820600-149831600	Weak transcription	Fetal Stomach	stomach
34	chr6:149820600-149832400	Weak transcription	Fetal Muscle Trunk	muscle
35	chr6:149820600-149832400	Weak transcription	Dnd41	blood
36	chr6:149820600-149835000	Weak transcription	NHEK	skin
37	chr6:149820600-149838400	Weak transcription	Rectal Smooth Muscle	rectum
38	chr6:149820600-149839400	Weak transcription	Thymus	Thymus
39	chr6:149820600-149842600	Weak transcription	Placenta Amnion	Placenta Amnion
40	chr6:149820600-149847800	Weak transcription	Brain Substantia Nigra	brain
41	chr6:149820600-149851400	Weak transcription	NHLF	lung
42	chr6:149820600-149865200	Weak transcription	Stomach Mucosa	stomach
43	chr6:149820800-149832600	Weak transcription	HUVEC	blood vessel
44	chr6:149820800-149841800	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr6:149820800-149848200	Weak transcription	Pancreas	Pancrea
46	chr6:149821200-149835200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr6:149821200-149835200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr6:149821400-149839800	Weak transcription	HMEC	breast
49	chr6:149821600-149828200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
50	chr6:149821600-149835200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links