Variant report

Variant	rs17680908
Chromosome Location	chr7:27578968-27578969
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:27578194..27581554-chr7:27590667..27593383,3	K562	blood:

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs1014372	1.00[CEU][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10249314	1.00[CEU][hapmap];1.00[AFR][1000 genomes]
rs1029604	1.00[AFR][1000 genomes]
rs11761718	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs11761773	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11762056	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11764419	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs11764624	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11765792	0.84[EUR][1000 genomes]
rs11767719	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11768533	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11771265	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11772163	1.00[CEU][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11773626	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17607155	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17607303	1.00[CEU][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17683094	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs2158892	0.88[CEU][hapmap];1.00[AFR][1000 genomes]
rs41326151	0.91[CEU][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs42090	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs42093	1.00[CEU][hapmap]
rs42097	1.00[CEU][hapmap]
rs42114	1.00[AFR][1000 genomes]
rs4719905	1.00[AFR][1000 genomes]
rs4722736	0.80[CEU][hapmap];1.00[AFR][1000 genomes]
rs56934824	0.82[EUR][1000 genomes]
rs57863648	0.82[EUR][1000 genomes]
rs60247061	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs60326970	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs60600655	0.82[EUR][1000 genomes]
rs60939746	0.96[EUR][1000 genomes]
rs61659103	0.83[EUR][1000 genomes]
rs62454846	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62454847	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62454852	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62454853	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62454854	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62454909	0.83[EUR][1000 genomes]
rs62454911	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62454912	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62454913	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62456899	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62456903	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62456949	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62456952	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62456953	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6462045	1.00[AFR][1000 genomes]
rs68015840	0.83[EUR][1000 genomes]
rs6945079	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6946582	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6969516	1.00[AFR][1000 genomes]
rs6970160	0.87[CEU][hapmap];1.00[AFR][1000 genomes]
rs6978979	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73075112	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs73079438	0.86[EUR][1000 genomes]
rs7456595	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7795207	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7803464	0.91[AMR][1000 genomes];1.00[EUR][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	nsv830930	chr7:27395838-27587355	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv949025	chr7:27578167-28075172	Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:27553200-27581000	Weak transcription	Fetal Heart	heart
2	chr7:27555800-27581000	Weak transcription	Gastric	stomach
3	chr7:27556000-27579200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr7:27556000-27581600	Weak transcription	HMEC	breast
5	chr7:27556400-27584400	Weak transcription	NHEK	skin
6	chr7:27556400-27586400	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr7:27558000-27579800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr7:27559400-27584200	Weak transcription	Pancreas	Pancrea
9	chr7:27559400-27627800	Weak transcription	Psoas Muscle	Psoas
10	chr7:27559800-27593000	Weak transcription	Rectal Smooth Muscle	rectum
11	chr7:27561200-27580200	Weak transcription	Colon Smooth Muscle	Colon
12	chr7:27561200-27580600	Strong transcription	Liver	Liver
13	chr7:27561600-27583000	Weak transcription	Colonic Mucosa	Colon
14	chr7:27561800-27580200	Weak transcription	Fetal Stomach	stomach
15	chr7:27562400-27579800	Weak transcription	NH-A	brain
16	chr7:27562400-27581000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr7:27562400-27581000	Weak transcription	Spleen	Spleen
18	chr7:27563000-27580000	Weak transcription	Fetal Thymus	thymus
19	chr7:27563000-27581000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr7:27563200-27579800	Weak transcription	Brain Angular Gyrus	brain
21	chr7:27563400-27580800	Weak transcription	GM12878-XiMat	blood
22	chr7:27563400-27581800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr7:27564000-27580800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr7:27564200-27582000	Weak transcription	Stomach Mucosa	stomach
25	chr7:27564200-27585400	Weak transcription	Small Intestine	intestine
26	chr7:27565200-27581600	Weak transcription	Esophagus	oesophagus
27	chr7:27565600-27592200	Weak transcription	Brain Substantia Nigra	brain
28	chr7:27566000-27579800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr7:27566000-27580000	Weak transcription	Primary T helper cells fromperipheralblood	blood
30	chr7:27566000-27580000	Weak transcription	Thymus	Thymus
31	chr7:27566000-27580200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr7:27566000-27580600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr7:27566000-27581000	Weak transcription	Brain Anterior Caudate	brain
34	chr7:27566000-27583800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr7:27566200-27579800	Weak transcription	Hela-S3	cervix
36	chr7:27566200-27580000	Weak transcription	K562	blood
37	chr7:27566400-27579600	Weak transcription	Primary T cells fromperipheralblood	blood
38	chr7:27566800-27579800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
39	chr7:27566800-27593200	Weak transcription	Lung	lung
40	chr7:27567000-27580000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
41	chr7:27567200-27582800	Weak transcription	Placenta Amnion	Placenta Amnion
42	chr7:27569000-27579800	Weak transcription	Brain Cingulate Gyrus	brain
43	chr7:27569000-27579800	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr7:27569000-27579800	Weak transcription	Osteobl	bone
45	chr7:27569000-27580200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr7:27569200-27579600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr7:27569400-27579200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr7:27569400-27579400	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr7:27569400-27579800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
50	chr7:27569400-27580000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links