Variant report

Variant	rs12574568
Chromosome Location	chr11:65762654-65762655
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:65758864..65760871-chr11:65762649..65765214,2	MCF-7	breast:
2	chr11:65761975..65763785-chr11:65767733..65769368,2	MCF-7	breast:
3	chr11:65762506..65765263-chr11:67235744..67237366,2	MCF-7	breast:
4	chr11:65749300..65751914-chr11:65760648..65762675,2	K562	blood:
5	chr11:65762401..65764466-chr11:65772379..65774986,2	K562	blood:
6	chr11:65755935..65759042-chr11:65762460..65765703,3	MCF-7	breast:
7	chr11:65748017..65751656-chr11:65762573..65766422,5	K562	blood:

Variant related genes	Relation type
ENSG00000254867	Chromatin interaction
ENSG00000175376	Chromatin interaction
ENSG00000172663	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10896065	1.00[JPT][hapmap]
rs11545221	0.92[AFR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12099359	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs12575004	0.86[AFR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12575514	0.91[ASN][1000 genomes]
rs12575735	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs12576095	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12576287	0.99[ASN][1000 genomes]
rs12576319	1.00[JPT][hapmap]
rs12577165	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12577625	0.91[ASN][1000 genomes]
rs2241304	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs2276015	0.92[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2276017	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2277305	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28372938	0.92[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs3825068	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4930169	0.92[CHB][hapmap];0.89[JPT][hapmap]
rs565921	1.00[CEU][hapmap]
rs57968007	0.90[ASN][1000 genomes]
rs58905199	0.91[ASN][1000 genomes]
rs59156593	0.90[EUR][1000 genomes]
rs61515492	0.86[ASN][1000 genomes]
rs653955	1.00[JPT][hapmap]
rs6591205	1.00[CEU][hapmap]
rs67232706	0.89[ASN][1000 genomes]
rs67530871	0.89[ASN][1000 genomes]
rs72928826	0.90[EUR][1000 genomes]
rs72928828	0.91[ASN][1000 genomes]
rs72928830	0.91[ASN][1000 genomes]
rs72928831	0.84[ASN][1000 genomes]
rs72928860	0.92[AFR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72928879	0.92[AFR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72928884	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72928892	0.85[EUR][1000 genomes]
rs72928895	0.85[EUR][1000 genomes]
rs72928898	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72928900	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72930912	0.85[EUR][1000 genomes]
rs72930914	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72930933	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72930942	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72930945	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72930951	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72930952	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72930956	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72930958	0.85[EUR][1000 genomes]
rs72930964	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72930967	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72930974	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72930976	0.85[EUR][1000 genomes]
rs72930978	0.85[EUR][1000 genomes]
rs72930984	0.85[EUR][1000 genomes]
rs72930985	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7940700	1.00[JPT][hapmap]
rs9326362	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs9943575	0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430401	chr11:65419324-65788024	Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	224 gene(s)	inside rSNPs	diseases
2	nsv832191	chr11:65632329-65806120	Flanking Active TSS Weak transcription Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
3	nsv948711	chr11:65692760-65949674	Genic enhancers Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	65 gene(s)	inside rSNPs	diseases
4	nsv897768	chr11:65715210-65842064	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	61 gene(s)	inside rSNPs	diseases
5	nsv897769	chr11:65727799-65828625	Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	56 gene(s)	inside rSNPs	diseases
6	esv3335923	chr11:65741698-66175759	Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	117 gene(s)	inside rSNPs	diseases
7	nsv819658	chr11:65757756-65764902	Strong transcription Weak transcription Enhancers	TF binding region Chromatin interactive region	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:65730600-65767800	Weak transcription	Right Atrium	heart
2	chr11:65736400-65767400	Weak transcription	Psoas Muscle	Psoas
3	chr11:65741200-65765000	Weak transcription	NHDF-Ad	bronchial
4	chr11:65743800-65764800	Weak transcription	HSMM	muscle
5	chr11:65745000-65764200	Weak transcription	HUVEC	blood vessel
6	chr11:65745200-65764800	Weak transcription	K562	blood
7	chr11:65745400-65764800	Weak transcription	Rectal Smooth Muscle	rectum
8	chr11:65745400-65765000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr11:65745600-65764200	Weak transcription	NH-A	brain
10	chr11:65745800-65764800	Weak transcription	Primary hematopoietic stem cells	blood
11	chr11:65746000-65764600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr11:65746800-65765000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr11:65747000-65764200	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr11:65747000-65764600	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr11:65747000-65764600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr11:65747000-65764600	Weak transcription	Ovary	ovary
17	chr11:65747000-65764800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr11:65747200-65764200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr11:65747200-65764200	Weak transcription	Adipose Nuclei	Adipose
20	chr11:65747200-65764200	Weak transcription	Liver	Liver
21	chr11:65747200-65764200	Weak transcription	A549	lung
22	chr11:65747200-65764400	Weak transcription	Left Ventricle	heart
23	chr11:65747200-65764600	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr11:65747200-65764600	Weak transcription	Brain Hippocampus Middle	brain
25	chr11:65747200-65764800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr11:65747200-65764800	Weak transcription	Pancreas	Pancrea
27	chr11:65747200-65764800	Weak transcription	Small Intestine	intestine
28	chr11:65747400-65763000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr11:65747400-65763800	Weak transcription	Primary T helper cells fromperipheralblood	blood
30	chr11:65747400-65764200	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr11:65747400-65764200	Weak transcription	Sigmoid Colon	Sigmoid Colon
32	chr11:65747400-65764800	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr11:65747400-65764800	Weak transcription	Fetal Lung	lung
34	chr11:65747400-65765200	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr11:65747600-65764200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr11:65747600-65764600	Weak transcription	HUES64 Cell Line	embryonic stem cell
37	chr11:65747600-65764800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr11:65747600-65765000	Weak transcription	Colonic Mucosa	Colon
39	chr11:65747800-65764000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr11:65747800-65764000	Weak transcription	Placenta	Placenta
41	chr11:65747800-65764200	Weak transcription	Gastric	stomach
42	chr11:65747800-65764200	Weak transcription	Right Ventricle	heart
43	chr11:65747800-65764200	Weak transcription	HMEC	breast
44	chr11:65747800-65764600	Weak transcription	Osteobl	bone
45	chr11:65747800-65764800	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr11:65747800-65764800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr11:65747800-65764800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr11:65748000-65764600	Weak transcription	Fetal Intestine Large	intestine
49	chr11:65748000-65764800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr11:65748000-65764800	Weak transcription	Esophagus	oesophagus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links